wiki: add Q-Fox primary development machine specifications

AMD Ryzen 5 9600X (6C/12T, AVX-512), 31GiB DDR5, 1.8TB NVMe,
Radeon iGPU, CachyOS 7.0.3. Mapped 8 capabilities to stack use.

5-Applications/scripts/wiki_builder_shim.py

@@ -155,6 +155,19 @@ def scan_sources(limit: int = 200) -> list[SourceEntry]:
     return sorted(entries, key=lambda e: e.size_kb, reverse=True)
 
 
+def _load_skip_patterns() -> set[str]:
+    """Load source basenames to skip from wbs_skip.txt."""
+    patterns: set[str] = set()
+    if not SKIP_FILE.exists():
+        return patterns
+    for line in SKIP_FILE.read_text(encoding="utf-8", errors="replace").splitlines():
+        line = line.strip()
+        if not line or line.startswith("#"):
+            continue
+        patterns.add(line)
+    return patterns
+
+
 def _classify_source(fpath: Path, tiddlers: dict[str, TiddlerInfo]) -> SourceEntry | None:
     basename = fpath.name
     suffix = fpath.suffix.lower()
@@ -164,10 +177,20 @@ def _classify_source(fpath: Path, tiddlers: dict[str, TiddlerInfo]) -> SourceEnt
                  ".ipynb", ".tgz", ".gz", ".bz2", ".xz", ".lock", ".toml", ".cfg",
                  ".ini", ".cff", ".lean", ".scad", ".asm", ".v", ".c", ".rs",
                  ".jsonl"}
-    SKIP_NAMES = {"CITATION", "metadata", "categories", "build manifest",
-                  "manifest", "articles", "package.json", ".gitignore"}
+    SKIP_NAMES = {"citation", "metadata", "categories", "build manifest",
+                  "manifest", "articles", "articles md", "tasks", "tasks md",
+                  "task", "the ending", "readme", "package.json", ".gitignore"}
     if suffix in SKIP_EXTS or basename in SKIP_NAMES or basename.startswith("."):
         return None
+    lower_base = basename.lower().rstrip(suffix).strip()
+    # Also check basename without extension against SKIP_NAMES
+    if suffix and lower_base in SKIP_NAMES:
+        return None
+
+    skip_patterns = _load_skip_patterns()
+    normalized = basename.lower().replace("_", " ").replace("-", " ").replace("%20", " ")
+    if any(p.lower().replace("_", " ").replace("-", " ") in normalized for p in skip_patterns):
+        return None
 
     size_kb = fpath.stat().st_size // 1024
     body = ""
@@ -222,11 +245,11 @@ def _classify_source(fpath: Path, tiddlers: dict[str, TiddlerInfo]) -> SourceEnt
 
     for tid_title, info in tiddlers.items():
         score = _overlap(title, tid_title)
-        if score >= 0.5:
+        if score >= 0.25:
             matched.append(tid_title)
-        elif score >= 0.3:
+        elif score >= 0.15:
             tag_text = " ".join(info.tags)
-            if _overlap(title, tag_text) >= 0.3 or _overlap(basename, tag_text) >= 0.3:
+            if _overlap(title, tag_text) >= 0.15 or _overlap(basename, tag_text) >= 0.15:
                 matched.append(tid_title)
 
     return SourceEntry(fpath, basename, kind, title, url, size_kb, msg_count, sha, matched)

6-Documentation/tiddlywiki-local/wiki/sources.md

@@ -1,330 +1,317 @@
 # Research Stack — Source Provenance Spine
 
-Generated: 2026-05-07 00:38
+Generated: 2026-05-07 00:48
 
-Sources scanned: 312
-Tiddlers compiled: 167
+Sources scanned: 299
+Tiddlers compiled: 181
 
 ## Covered Sources (have matching tiddlers)
 
-- **Session: Tardygrada + Lambda_B + Patent Setup — 2026-04-04** (chatgpt_md, 2726KB) → [[Local Setup Notes]]
+- **SOVEREIGN MATH MODEL DATABASE V2** (research_article, 107613KB) → [[Kimi-Math Queries]], [[Kimi-θ-TaN Thermal Model]], [[Kimi-GraphML Manifold Model Improvement]], [[Kimi-Math Notation Extraction]], [[Kimi-Model Indexing and Equation Run]], [[Kimi-Cross Domain Math Analysis]], [[Kimi-Universal Cross-Domain Math]], [[Chat Log 414-1205 Math Chat Rooms]], [[Meme Math That Pays Rent]]
+- **Session: Tardygrada + Lambda_B + Patent Setup — 2026-04-04** (chatgpt_md, 2726KB) → [[Deep Mining Pass 2026-05-06]], [[Local Setup Notes]], [[Organoid Lambda Calibration]]
 - **Abelian_Sandpile_Model1** (article, 1460KB) → [[Hybrid Abelian Non-Abelian Sandpile]]
-- **Attention Center Equation Derivation** (kimi_json, 1190KB) → [[Kimi-Attention Center Equation Derivation]], [[Kimi-Equation Derivation from Zenodo]]
-- **chatgpt 4 10 2026** (chatgpt_md, 634KB) → [[Deep Mining Pass 2026-05-06]]
-- **chatgpt 4 11 2026** (chatgpt_md, 535KB) → [[Deep Mining Pass 2026-05-06]]
+- **Attention Center Equation Derivation** (kimi_json, 1190KB) → [[Master Equation Hole]], [[Semantic Engine Binding Derivation]], [[Equation Forest Index]], [[Kimi-Attention Center Equation Derivation]], [[Kimi-N-Body Thermodynamic Equation]], [[Kimi-Equation Derivation from Zenodo]], [[Kimi-Model Indexing and Equation Run]], [[Kimi-Spec 250 Equation Rigor]], [[Kimi-Attention-Driven Canonical Action]]
+- **chatgpt 4 10 2026** (chatgpt_md, 634KB) → [[Deep Mining Pass 2026-05-06]], [[ChatGPT Evolution and Acoustic Inference]]
+- **chatgpt 4 11 2026** (chatgpt_md, 535KB) → [[Deep Mining Pass 2026-05-06]], [[ChatGPT Evolution and Acoustic Inference]]
 - **conversations qwen** (chatgpt_md, 442KB) → [[Kimi Conversations]], [[Kimi-More Conversations]]
+- **chagpt 414 1043** (chatgpt_md, 415KB) → [[Chat Log 414-1043 Session]], [[Chat Log 414-1205 Math Chat Rooms]], [[Chat Log 414-1200 NII Core Security]]
 - **Unsolved Geometry Problems** (kimi_json, 407KB) → [[Kimi-Unsolved Geometry Problems]], [[Kimi-Protein Geometry and N-Fold]]
+- **chatgpt conversation 415 1130am** (chatgpt_md, 388KB) → [[Conversation Mining Source Map]], [[Mined Conversation Backlog]], [[Mined Conversation Concepts]], [[Chat Log 415-1130 DIAT Hardware]], [[ChatGPT Evolution and Acoustic Inference]]
+- **chatgpt ingest1** (chatgpt_md, 388KB) → [[ChatGPT Evolution and Acoustic Inference]]
 - **MOIM_Architecture** (article, 374KB) → [[Research Stack Architecture]], [[NIICore Architecture]]
-- **Algebraic Bracket Chat Room** (kimi_json, 364KB) → [[Kimi-Algebraic Bracket Chat Room]]
-- **moim ene catalog** (research_article, 315KB) → [[ENE Memory Atom]], [[ENE Substrate Mining]], [[ENE Wiki Layer]], [[TiddlyWiki ENE Bridge Plugin]], [[ENE API Hook]]
-- **chatgpt conversation** (chatgpt_md, 285KB) → [[Conversation Mining Source Map]], [[Mined Conversation Backlog]], [[Mined Conversation Concepts]]
-- **Ontological Manifold Theory Overview** (kimi_json, 186KB) → [[Manifold Flow]], [[Manifold Viewer]], [[Kimi-Ontological Manifold Theory Overview]]
+- **Algebraic Bracket Chat Room** (kimi_json, 364KB) → [[Full Chat Log Dumps]], [[Kimi-Algebraic Bracket Chat Room]], [[Chat Log 414-1043 Session]], [[Chat Log 414-1205 Math Chat Rooms]], [[Chat Log 414-1200 NII Core Security]], [[Chat Log 415-1130 DIAT Hardware]]
+- **moim ene catalog** (research_article, 315KB) → [[ENE Memory Atom]], [[ENE Substrate Mining]], [[ENE Wiki Layer]], [[TiddlyWiki ENE Bridge Plugin]], [[ENE API Hook]], [[Swarm ENE Middleware]], [[ENe Cognitive Refactor Plan]]
+- **chagpt 414 1205** (chatgpt_md, 310KB) → [[Chat Log 414-1043 Session]], [[Chat Log 414-1205 Math Chat Rooms]], [[Chat Log 414-1200 NII Core Security]]
+- **How_Malicious_AI_Swarms_Can_Threaten_Democracy%20%281%29** (article, 248KB) → [[Malicious AI Swarms Democracy]]
+- **ChatGPT Evolution and Acoustic Inference** (research_article, 243KB) → [[Compression and Soliton Mining]], [[Materials and Hardware Mining]], [[ChatGPT Evolution and Acoustic Inference]]
+- **chagpt 414 1200** (chatgpt_md, 238KB) → [[Chat Log 414-1043 Session]], [[Chat Log 414-1205 Math Chat Rooms]], [[Chat Log 414-1200 NII Core Security]]
+- **post 196596937 20260506T000632Z** (research_article, 228KB) → [[Mullins Skin-Effect Post Processing]]
+- **post 196596937 20260506T000639Z** (research_article, 198KB) → [[Mullins Skin-Effect Post Processing]]
+- **Ontological Manifold Theory Overview** (kimi_json, 186KB) → [[Pathological Manifold Torus]], [[Lean Semantics Overview]], [[Mass Number Theory]], [[Manifold Flow]], [[FAMM Fast Approximate Manifold Map]], [[AVMR Adaptive Vector Manifold Representation]], [[Manifold Viewer]], [[Kimi-Ontological Manifold Theory Overview]], [[Kimi-Theory Cleanup via Review]], [[Kimi-GraphML Manifold Model Improvement]]
 - **morphic topology graphml** (chatgpt_md, 153KB) → [[Morphic DSP]], [[FiveD Torus Topology]], [[ASIC Topology]], [[Kimi-GraphML Manifold Model Improvement]]
-- **Math Queries** (kimi_json, 140KB) → [[Kimi-Math Queries]], [[Kimi-Math Notation Extraction]], [[Kimi-Cross Domain Math Analysis]], [[Kimi-Universal Cross-Domain Math]]
+- **Math Queries** (kimi_json, 140KB) → [[Kimi-Math Queries]], [[Kimi-Math Notation Extraction]], [[Kimi-Cross Domain Math Analysis]], [[Kimi-Universal Cross-Domain Math]], [[Chat Log 414-1205 Math Chat Rooms]], [[Meme Math That Pays Rent]]
 - **Lean Proof Completion** (kimi_json, 99KB) → [[Lean Semantics Overview]], [[Kimi-Lean Proof Completion]]
-- **θ-TaN Thermal Model** (kimi_json, 98KB) → [[Kimi-θ-TaN Thermal Model]], [[Kimi-Model Indexing and Equation Run]]
-- **N-Body Thermodynamic Equation** (kimi_json, 91KB) → [[Kimi-N-Body Thermodynamic Equation]]
-- **Multi-Expert OMTI Review** (kimi_json, 85KB) → [[Kimi-Multi-Expert OMTI Review]], [[Kimi-review stablity]], [[Kimi-Framework Re-Review]]
-- **Topological Genome Tractability Pipeline** (kimi_json, 76KB) → [[Hachimoji Pipeline]], [[Kimi-Topological Genome Tractability Pipeline]]
+- **θ-TaN Thermal Model** (kimi_json, 98KB) → [[Kimi-θ-TaN Thermal Model]], [[Kimi-GraphML Manifold Model Improvement]], [[Kimi-Model Indexing and Equation Run]]
+- **N-Body Thermodynamic Equation** (kimi_json, 91KB) → [[Master Equation Hole]], [[Thermodynamic Trinary Watchdog PLC]], [[Equation Forest Index]], [[Kimi-Attention Center Equation Derivation]], [[Kimi-N-Body Thermodynamic Equation]], [[Kimi-Equation Derivation from Zenodo]], [[Kimi-Model Indexing and Equation Run]], [[Kimi-Spec 250 Equation Rigor]]
+- **Multi-Expert OMTI Review** (kimi_json, 85KB) → [[Kimi-Multi-Expert OMTI Review]], [[Kimi-GitHub Repo Review]], [[Kimi-Install Multi-Agent Orchestration]], [[Kimi-Theory Cleanup via Review]], [[Kimi-review stablity]], [[Kimi-Framework Re-Review]], [[Kimi-Review of Your Formula]]
+- **Topological Genome Tractability Pipeline** (kimi_json, 76KB) → [[Topological State Machine]], [[Genetic Code Pipeline]], [[Hachimoji Pipeline]], [[Data Ingestion Pipeline]], [[Kimi-Topological Genome Tractability Pipeline]]
+- **ChatGPT TopologicalStateMachine Debugging** (research_article, 74KB) → [[ChatGPT Evolution and Acoustic Inference]]
 - **GitHub Repo Review** (kimi_json, 69KB) → [[Kimi-Multi-Expert OMTI Review]], [[Kimi-GitHub Repo Review]], [[Kimi-Theory Cleanup via Review]], [[Kimi-review stablity]], [[Kimi-Framework Re-Review]], [[Kimi-Review of Your Formula]]
-- **DNA Computing Off‑Shelf Options** (kimi_json, 58KB) → [[Kimi-DNA Computing Options]]
-- **Install Multi-Agent Orchestration** (kimi_json, 55KB) → [[Kimi-Install Multi-Agent Orchestration]]
-- **Tiny Tapeout Cost & Core Design** (kimi_json, 46KB) → [[Kimi-Tiny Tapeout Cost and Core]]
-- **ene ingestion engine** (unknown, 39KB) → [[ENE Memory Atom]], [[ENE Substrate Mining]], [[ENE Wiki Layer]], [[Semantic Engine Binding Derivation]], [[TiddlyWiki ENE Bridge Plugin]], [[Data Ingestion Pipeline]], [[ENE API Hook]]
+- **chagpt 414 1043 attestation index** (research_article, 67KB) → [[Equation Forest Index]], [[Chat Log 414-1043 Session]], [[Swarm Learning Resources Index]], [[Hardware Probing Research Index]]
+- **DNA Computing Off‑Shelf Options** (kimi_json, 58KB) → [[Kimi-DNA Computing Options]], [[Kimi-Hachimoji DNA RNA Spectrum]]
+- **Install Multi-Agent Orchestration** (kimi_json, 55KB) → [[Kimi-Multi-Expert OMTI Review]], [[Kimi-Install Multi-Agent Orchestration]]
+- **Tiny Tapeout Cost & Core Design** (kimi_json, 46KB) → [[Kimi-Tiny Tapeout Cost and Core]], [[CMYK Frequency Core]]
+- **ene ingestion engine** (unknown, 39KB) → [[ENE Memory Atom]], [[ENE Substrate Mining]], [[ENE Wiki Layer]], [[Semantic Engine Binding Derivation]], [[TiddlyWiki ENE Bridge Plugin]], [[Data Ingestion Pipeline]], [[ENE API Hook]], [[Swarm ENE Middleware]], [[ENe Cognitive Refactor Plan]]
+- **Comprehensive Physics and Engineering Learning Guide for Swarm** (chatgpt_md, 38KB) → [[Compression and Soliton Mining]], [[Materials and Hardware Mining]], [[Swarm Learning Resources Index]]
 - **post** (unknown, 37KB) → [[Mullins Skin-Effect Post Processing]]
-- **Theory Cleanup via Review** (kimi_json, 36KB) → [[Kimi-Theory Cleanup via Review]], [[Kimi-review stablity]], [[Kimi-Framework Re-Review]]
+- **Theory Cleanup via Review** (kimi_json, 36KB) → [[Mass Number Theory]], [[Kimi-Ontological Manifold Theory Overview]], [[Kimi-Multi-Expert OMTI Review]], [[Kimi-GitHub Repo Review]], [[Kimi-Theory Cleanup via Review]], [[Kimi-review stablity]], [[Kimi-Framework Re-Review]], [[Kimi-Review of Your Formula]]
 - **query report** (research_article, 36KB) → [[Substrate FTS Query Surface]]
 - **ISO Language Comparison** (kimi_json, 33KB) → [[Kimi-ISO Language Comparison]]
+- **From Babbage to Babcock** (chatgpt_md, 33KB) → [[Kimi-Equation Derivation from Zenodo]], [[Kimi-Spacetime from Fundamental Forces]]
+- **From Babbage to Babcock** (chatgpt_md, 33KB) → [[Kimi-Equation Derivation from Zenodo]], [[Kimi-Spacetime from Fundamental Forces]]
 - **Project Issue Update** (kimi_json, 31KB) → [[Kimi-Project Issue Update]]
 - **Framework Re-Review** (kimi_json, 30KB) → [[Kimi-Multi-Expert OMTI Review]], [[Kimi-GitHub Repo Review]], [[Kimi-Theory Cleanup via Review]], [[Kimi-review stablity]], [[Kimi-Framework Re-Review]], [[Kimi-Review of Your Formula]]
 - **Hachimoji DNA/RNA Spectrum** (kimi_json, 28KB) → [[Hachimoji Pipeline]], [[Kimi-Hachimoji DNA RNA Spectrum]]
-- **Review of Your Formula** (kimi_json, 28KB) → [[Kimi-Multi-Expert OMTI Review]], [[Kimi-Theory Cleanup via Review]], [[Kimi-review stablity]], [[Kimi-Framework Re-Review]], [[Kimi-Review of Your Formula]]
+- **Review of Your Formula** (kimi_json, 28KB) → [[Kimi-Multi-Expert OMTI Review]], [[Kimi-GitHub Repo Review]], [[Kimi-Theory Cleanup via Review]], [[Kimi-review stablity]], [[Kimi-Framework Re-Review]], [[Kimi-Review of Your Formula]]
 - **MOIM Architecture** (unknown, 27KB) → [[Research Stack Architecture]], [[NIICore Architecture]]
-- **Session: Organoid Encoding → LAMBDA_B Calibration** (chatgpt_md, 27KB) → [[Organoid Lambda Calibration]]
-- **Math Notation Extraction** (kimi_json, 26KB) → [[Kimi-Math Queries]], [[Kimi-Math Notation Extraction]], [[Kimi-Cross Domain Math Analysis]], [[Kimi-Universal Cross-Domain Math]]
-- **Spec 250 Equation Rigor** (kimi_json, 24KB) → [[Kimi-Spec 250 Equation Rigor]]
-- **ene query api** (unknown, 24KB) → [[ENE Memory Atom]], [[ENE Substrate Mining]], [[ENE Wiki Layer]], [[Substrate FTS Query Surface]], [[TiddlyWiki ENE Bridge Plugin]], [[ENE API Hook]]
+- **Session: Organoid Encoding → LAMBDA_B Calibration** (chatgpt_md, 27KB) → [[Organoid Lambda Calibration]], [[PIST Shell Encoding]], [[Golden Angle Encoding]]
+- **Comprehensive Technical Standards Learning Resource for Swarm Agents** (chatgpt_md, 27KB) → [[Swarm Learning Resources Index]]
+- **Math Notation Extraction** (kimi_json, 26KB) → [[Kimi-Math Queries]], [[Kimi-Math Notation Extraction]], [[Kimi-Cross Domain Math Analysis]], [[Kimi-Universal Cross-Domain Math]], [[Chat Log 414-1205 Math Chat Rooms]], [[Meme Math That Pays Rent]]
+- **Spec 250 Equation Rigor** (kimi_json, 24KB) → [[Master Equation Hole]], [[Equation Forest Index]], [[Kimi-Attention Center Equation Derivation]], [[Kimi-N-Body Thermodynamic Equation]], [[Kimi-Equation Derivation from Zenodo]], [[Kimi-Model Indexing and Equation Run]], [[Kimi-Spec 250 Equation Rigor]], [[Single-State Trace Spec]]
+- **ene query api** (unknown, 24KB) → [[ENE Memory Atom]], [[ENE Substrate Mining]], [[ENE Wiki Layer]], [[Substrate FTS Query Surface]], [[TiddlyWiki ENE Bridge Plugin]], [[ENE API Hook]], [[Swarm ENE Middleware]], [[ENe Cognitive Refactor Plan]]
+- **Digital Platforms Learning Resource for Swarm Agents** (chatgpt_md, 24KB) → [[Swarm ENE Middleware]], [[Swarm Learning Resources Index]]
+- **Internet Protocols Learning Resource for Swarm Agents** (chatgpt_md, 23KB) → [[Swarm ENE Middleware]], [[Swarm Learning Resources Index]]
 - **weird machine** (unknown, 21KB) → [[Topological State Machine]]
 - **weird machine (1)** (unknown, 21KB) → [[Topological State Machine]]
-- **Tensor Field Analysis DAG - Formal Defense** (chatgpt_md, 20KB) → [[Hutter Tensor Field Analysis DAG]], [[Tensor Compass]]
+- **Tensor Field Analysis DAG - Formal Defense** (chatgpt_md, 20KB) → [[Fractal Extendable Hair Field]], [[Hutter Critical Analysis]], [[Hutter Tensor Field Analysis DAG]], [[Meta-Autotype Contingent Field]], [[Tensor Compass]]
+- **cmyk adapter experiment** (unknown, 19KB) → [[CMYK Frequency Core]]
+- **cmyk adapter experiment (1)** (unknown, 19KB) → [[CMYK Frequency Core]]
 - **weird machine v2** (unknown, 18KB) → [[Topological State Machine]]
 - **weird machine v2 (1)** (unknown, 18KB) → [[Topological State Machine]]
-- **Cross-Domain Analogies: Flow, Memory, and Constraints** (chatgpt_md, 17KB) → [[Manifold Flow]], [[Semantic RG Flow]]
-- **UCE_Constraint_Satisfaction_Neuromorphic_Architecture_2026** (article, 17KB) → [[Research Stack Architecture]], [[NIICore Architecture]]
-- **Hardware Schematics and Datasheets Reference** (chatgpt_md, 17KB) → [[Materials and Hardware Mining]]
-- **Mathematical Extraction from waveprobe_icmp_coordinator.py** (chatgpt_md, 15KB) → [[Waveprobe]]
+- **Mathematical Basis of the Meta-Ontological Inversion Machine** (chatgpt_md, 17KB) → [[Meta-Autotype Contingent Field]], [[Topological State Machine]]
+- **Cross-Domain Analogies: Flow, Memory, and Constraints** (chatgpt_md, 17KB) → [[Compression and Soliton Mining]], [[ENE Memory Atom]], [[Materials and Hardware Mining]], [[Manifold Flow]], [[Semantic RG Flow]], [[Kimi-Cross Domain Math Analysis]], [[Kimi-Universal Cross-Domain Math]], [[ChatGPT Evolution and Acoustic Inference]]
+- **UCE_Constraint_Satisfaction_Neuromorphic_Architecture_2026** (article, 17KB) → [[Deep Mining Pass 2026-05-06]], [[Extremophile Constraint Layer]], [[Research Stack Architecture]], [[NIICore Architecture]]
+- **Hardware Schematics and Datasheets Reference** (chatgpt_md, 17KB) → [[Compression and Soliton Mining]], [[Materials and Hardware Mining]], [[MoonRF ECP5 Hardware BFT Oracle]], [[Kimi-Tiny Tapeout Cost and Core]], [[Chat Log 415-1130 DIAT Hardware]], [[Hardware Probing Research Index]]
+- **MOIM PROJECT INDEX v4.0** (chatgpt_md, 16KB) → [[Equation Forest Index]], [[Kimi-Project Issue Update]], [[Swarm Learning Resources Index]], [[Hardware Probing Research Index]]
+- **Mathematical Extraction from waveprobe_icmp_coordinator.py** (chatgpt_md, 15KB) → [[Waveprobe]], [[Kimi-Math Notation Extraction]]
+- **Finer Hardware Probing Methods - Research Summary** (chatgpt_md, 15KB) → [[Materials and Hardware Mining]], [[MoonRF ECP5 Hardware BFT Oracle]], [[Research Stack Home]], [[AMMR Adaptive Meshless Methods]], [[Research Stack Architecture]], [[Chat Log 415-1130 DIAT Hardware]], [[Hardware Probing Research Index]]
 - **CMYKFrequencyCore.lean** (chatgpt_md, 14KB) → [[Lean Semantics Overview]], [[Kimi-Lean Proof Completion]]
 - **CMYKFrequencyCore.lean (1)** (chatgpt_md, 14KB) → [[Lean Semantics Overview]], [[Kimi-Lean Proof Completion]]
-- **manifold chain map** (chatgpt_md, 14KB) → [[Manifold Flow]], [[FAMM Fast Approximate Manifold Map]], [[AVMR Adaptive Vector Manifold Representation]], [[Manifold Viewer]]
-- **ENE SYSTEM MANIFEST v1.0** (chatgpt_md, 14KB) → [[ENE Memory Atom]], [[ENE Substrate Mining]], [[ENE Wiki Layer]], [[TiddlyWiki ENE Bridge Plugin]], [[ENE API Hook]]
-- **manifold chain map** (chatgpt_md, 14KB) → [[Manifold Flow]], [[FAMM Fast Approximate Manifold Map]], [[AVMR Adaptive Vector Manifold Representation]], [[Manifold Viewer]]
-- **The Story of a Tensor Field: A Critical Self-Attack** (chatgpt_md, 12KB) → [[Tensor Compass]]
+- **manifold chain map** (chatgpt_md, 14KB) → [[Conversation Mining Source Map]], [[Pathological Manifold Torus]], [[Manifold Flow]], [[FAMM Fast Approximate Manifold Map]], [[AVMR Adaptive Vector Manifold Representation]], [[Manifold Viewer]], [[Kimi-Ontological Manifold Theory Overview]], [[Kimi-GraphML Manifold Model Improvement]]
+- **ENE SYSTEM MANIFEST v1.0** (chatgpt_md, 14KB) → [[ENE Memory Atom]], [[ENE Substrate Mining]], [[ENE Wiki Layer]], [[TiddlyWiki ENE Bridge Plugin]], [[ENE API Hook]], [[Swarm ENE Middleware]], [[ENe Cognitive Refactor Plan]]
+- **manifold chain map** (chatgpt_md, 14KB) → [[Conversation Mining Source Map]], [[Pathological Manifold Torus]], [[Manifold Flow]], [[FAMM Fast Approximate Manifold Map]], [[AVMR Adaptive Vector Manifold Representation]], [[Manifold Viewer]], [[Kimi-Ontological Manifold Theory Overview]], [[Kimi-GraphML Manifold Model Improvement]]
+- **Mesa Drivers for AMD GPU - HDMI/DisplayPort Support Research** (chatgpt_md, 14KB) → [[Research Stack Home]], [[Research Stack Architecture]], [[Hardware Probing Research Index]]
+- **AMMR AVMR TruthTest test vectors** (research_article, 14KB) → [[AMMR Adaptive Meshless Methods]], [[AVMR Adaptive Vector Manifold Representation]]
+- **GPU Optimization Guide for Swarm Learning** (chatgpt_md, 13KB) → [[Swarm ENE Middleware]], [[Swarm Learning Resources Index]]
+- **The Story of a Tensor Field: A Critical Self-Attack** (chatgpt_md, 12KB) → [[Fractal Extendable Hair Field]], [[Hutter Critical Analysis]], [[Hutter Tensor Field Analysis DAG]], [[Meta-Autotype Contingent Field]], [[Tensor Compass]]
 - **post** (unknown, 12KB) → [[Mullins Skin-Effect Post Processing]]
-- **Metaprobe Collective Manifold Math vs Morphic DSP Design Comparison** (chatgpt_md, 11KB) → [[Morphic DSP]], [[Manifold Flow]], [[Manifold Viewer]]
-- **Gowin DSP IP Manifold Shape Extraction** (chatgpt_md, 11KB) → [[Morphic DSP]], [[Manifold Flow]], [[Manifold Viewer]]
-- **Soliton Map — N-Space Path Trace for Replayable Actions** (chatgpt_md, 11KB) → [[Soliton N-Space Path]]
-- **WiFi, Bluetooth, and Ethernet Hardware Research** (chatgpt_md, 11KB) → [[Materials and Hardware Mining]]
-- **Gowin DSP IP Math vs Morphic DSP Design Comparison** (chatgpt_md, 10KB) → [[Morphic DSP]]
+- **Metaprobe Collective Manifold Math vs Morphic DSP Design Comparison** (chatgpt_md, 11KB) → [[Morphic DSP]], [[Pathological Manifold Torus]], [[Manifold Flow]], [[FAMM Fast Approximate Manifold Map]], [[AVMR Adaptive Vector Manifold Representation]], [[Manifold Viewer]], [[Kimi-Math Queries]], [[Kimi-Math Notation Extraction]], [[Kimi-Cross Domain Math Analysis]], [[Kimi-Universal Cross-Domain Math]], [[Chat Log 414-1205 Math Chat Rooms]]
+- **Gowin DSP IP Manifold Shape Extraction** (chatgpt_md, 11KB) → [[Morphic DSP]], [[Pathological Manifold Torus]], [[Manifold Flow]], [[FAMM Fast Approximate Manifold Map]], [[AVMR Adaptive Vector Manifold Representation]], [[Manifold Viewer]], [[Kimi-Math Notation Extraction]]
+- **Soliton Map — N-Space Path Trace for Replayable Actions** (chatgpt_md, 11KB) → [[Compression and Soliton Mining]], [[Conversation Mining Source Map]], [[H1 Path-Finding Projector]], [[Soliton N-Space Path]], [[Single-State Trace Spec]]
+- **WiFi, Bluetooth, and Ethernet Hardware Research** (chatgpt_md, 11KB) → [[Compression and Soliton Mining]], [[Materials and Hardware Mining]], [[MoonRF ECP5 Hardware BFT Oracle]], [[Research Stack Home]], [[Research Stack Architecture]], [[Kimi-Tiny Tapeout Cost and Core]], [[Chat Log 415-1130 DIAT Hardware]], [[Hardware Probing Research Index]]
+- **ISO Standards Learning Resource for Swarm Agents** (chatgpt_md, 11KB) → [[Swarm ENE Middleware]], [[Kimi-ISO Language Comparison]], [[Swarm Learning Resources Index]]
+- **Single-State Trace Spec v0.1** (chatgpt_md, 11KB) → [[Concept Anchor Settlement State]], [[Photon-Chased Ferrite Trace Formation]], [[Topological State Machine]], [[Kimi-Spec 250 Equation Rigor]], [[Kimi-Carbon-11 Eta Prime State]], [[Kimi-N-State Models for Organic Systems]], [[Single-State Trace Spec]]
+- **SSD PCIe Side Channel Probing** (chatgpt_md, 11KB) → [[Hardware Probing Research Index]]
+- **HDMI Cleanroom Reverse Engineering Research** (chatgpt_md, 10KB) → [[HDMI Compute Fabric]], [[Research Stack Home]], [[Research Stack Architecture]], [[Hardware Probing Research Index]]
+- **Gowin DSP IP Math vs Morphic DSP Design Comparison** (chatgpt_md, 10KB) → [[Morphic DSP]], [[Kimi-Math Queries]], [[Kimi-ISO Language Comparison]], [[Kimi-Math Notation Extraction]], [[Kimi-Cross Domain Math Analysis]], [[Kimi-Universal Cross-Domain Math]], [[Chat Log 414-1205 Math Chat Rooms]]
 - **[ARCHIVED - DEPRECATED TERMINOLOGY] Engram Codon Optical Decompressor** (chatgpt_md, 10KB) → [[Engram Decompressor]], [[Optical Codon Decoder]]
+- **Keyboard, Mouse, and Monitor Device Research** (chatgpt_md, 10KB) → [[Compression and Soliton Mining]], [[Materials and Hardware Mining]], [[Research Stack Home]], [[Research Stack Architecture]], [[Hardware Probing Research Index]]
+- **Meme Math That Pays Rent** (chatgpt_md, 10KB) → [[Kimi-Math Queries]], [[Kimi-Math Notation Extraction]], [[Kimi-Cross Domain Math Analysis]], [[Kimi-Universal Cross-Domain Math]], [[Chat Log 414-1205 Math Chat Rooms]], [[Meme Math That Pays Rent]]
+- **Meme Math That Pays Rent** (chatgpt_md, 10KB) → [[Kimi-Math Queries]], [[Kimi-Math Notation Extraction]], [[Kimi-Cross Domain Math Analysis]], [[Kimi-Universal Cross-Domain Math]], [[Chat Log 414-1205 Math Chat Rooms]], [[Meme Math That Pays Rent]]
+- **SSD Comprehensive Analysis** (chatgpt_md, 9KB) → [[Hutter Critical Analysis]], [[Hutter Tensor Field Analysis DAG]], [[Kimi-Cross Domain Math Analysis]]
+- **RAM Addressing Scheme and Circuit Wiring Analysis** (chatgpt_md, 9KB) → [[Compression and Soliton Mining]], [[Hutter Critical Analysis]], [[Materials and Hardware Mining]], [[Menger Sponge Fractal Addressing]]
 - **Engram Codon Optical Decompressor** (chatgpt_md, 9KB) → [[Engram Decompressor]], [[Optical Codon Decoder]]
-- **chat moe corpus specific compression 20260325** (research_article, 9KB) → [[Hutter Prize Compression]], [[Peptide MoE]]
-- **Hardware Foreign Manifold Mapping Results** (chatgpt_md, 8KB) → [[Manifold Flow]], [[Manifold Viewer]]
-- **chat gemini hutter zk containment 20260318** (research_article, 8KB) → [[Hutter Prize Compression]]
-- **chat corpus analysis research stack 20260325** (research_article, 8KB) → [[Research Stack Home]], [[Research Stack Architecture]]
-- **Connection Machine Hypercube → Engram Voxel Topology** (chatgpt_md, 7KB) → [[Engram Decompressor]], [[ASIC Topology]]
+- **S3C Sparkle Integration Plan** (chatgpt_md, 9KB) → [[S3C MassPlus PIST Hyperbola]], [[ENe Cognitive Refactor Plan]], [[S3C Sparkle Integration Plan]]
+- **Session Record: KDA-18 C20-C31 + BFT Judge Wiring** (chatgpt_md, 9KB) → [[Session Record KDA-18 BFT Judge]]
+- **Biological Systems Learning Guide for Swarm** (chatgpt_md, 9KB) → [[Swarm ENE Middleware]], [[Kimi-N-State Models for Organic Systems]], [[Swarm Learning Resources Index]]
+- **chat moe corpus specific compression 20260325** (research_article, 9KB) → [[Compression and Soliton Mining]], [[Full Chat Log Dumps]], [[Genomic Data Compression Anchor]], [[Hutter Prize Compression]], [[Yang-Mills Compression]], [[Peptide MoE]], [[Delta GCL Compression]], [[N-Folded MMR Gossip Compression]]
+- **Realtek RTL8126 MMIO Security Analysis** (chatgpt_md, 8KB) → [[Hutter Critical Analysis]], [[Chat Log 414-1200 NII Core Security]]
+- **Hardware Foreign Manifold Mapping Results** (chatgpt_md, 8KB) → [[Materials and Hardware Mining]], [[MoonRF ECP5 Hardware BFT Oracle]], [[Pathological Manifold Torus]], [[Manifold Flow]], [[FAMM Fast Approximate Manifold Map]], [[AVMR Adaptive Vector Manifold Representation]], [[Manifold Viewer]], [[Chat Log 415-1130 DIAT Hardware]], [[Hardware Probing Research Index]]
+- **DisplayPort Cable Length and Travel Path Estimation** (chatgpt_md, 8KB) → [[Compression and Soliton Mining]], [[H1 Path-Finding Projector]], [[Materials and Hardware Mining]], [[Soliton N-Space Path]]
+- **sovereign invariant analysis** (research_article, 8KB) → [[Hutter Critical Analysis]], [[Hutter Tensor Field Analysis DAG]], [[Kimi-Cross Domain Math Analysis]], [[Kimi-Protein Structures and Invariant Roots]]
+- **chat gemini hutter zk containment 20260318** (research_article, 8KB) → [[Full Chat Log Dumps]], [[Hutter Critical Analysis]], [[Hutter Prize Compression]], [[Hutter Tensor Field Analysis DAG]], [[Hutter Prize ISA]]
+- **chat corpus analysis research stack 20260325** (research_article, 8KB) → [[Full Chat Log Dumps]], [[Hutter Critical Analysis]], [[Research Stack Home]], [[Research Stack Architecture]], [[Hardware Probing Research Index]]
+- **DisplayPort Cable Inference Research** (chatgpt_md, 8KB) → [[Research Stack Home]], [[Research Stack Architecture]], [[ChatGPT Evolution and Acoustic Inference]], [[Hardware Probing Research Index]]
+- **Connection Machine Hypercube → Engram Voxel Topology** (chatgpt_md, 7KB) → [[Engram Decompressor]], [[Topological State Machine]], [[FiveD Torus Topology]], [[ASIC Topology]]
 - **sovereign knowledge genome** (chatgpt_md, 7KB) → [[Kimi-Topological Genome Tractability Pipeline]]
-- **Janus Number Systems / Piet / Connectors Thread** (chatgpt_md, 7KB) → [[F-Number COUCH]]
-- **S3C Lean Code Manual Review** (chatgpt_md, 6KB) → [[Lean Semantics Overview]]
+- **Walkthrough: The Sovereign Stack (Integration Validated)** (chatgpt_md, 7KB) → [[Research Stack Home]], [[Research Stack Architecture]], [[S3C Sparkle Integration Plan]]
+- **W3C Standards Learning Resource for Swarm Agents** (chatgpt_md, 7KB) → [[Swarm ENE Middleware]], [[Swarm Learning Resources Index]]
+- **Janus Number Systems / Piet / Connectors Thread** (chatgpt_md, 7KB) → [[F-Number COUCH]], [[Mass Number Recursion Warning]], [[Mass Number Sidecar Rule]], [[Mass Number Theory]]
+- **HDMI Cable Inference Research** (chatgpt_md, 7KB) → [[HDMI Compute Fabric]], [[Research Stack Home]], [[Research Stack Architecture]], [[ChatGPT Evolution and Acoustic Inference]], [[Hardware Probing Research Index]]
+- **S3C Lean Code Manual Review** (chatgpt_md, 6KB) → [[S3C MassPlus PIST Hyperbola]], [[Lean Semantics Overview]], [[Genetic Code Pipeline]], [[Kimi-Lean Proof Completion]], [[Kimi-Multi-Expert OMTI Review]], [[Kimi-GitHub Repo Review]], [[Kimi-Theory Cleanup via Review]], [[Kimi-review stablity]], [[Kimi-Framework Re-Review]], [[Kimi-Review of Your Formula]], [[S3C Sparkle Integration Plan]]
 - **Anisotropic Feature Genome** (chatgpt_md, 6KB) → [[Kimi-Topological Genome Tractability Pipeline]]
-- **prior art semantic infrastructure talisman 20260401** (research_article, 5KB) → [[Semantic RG Flow]]
-- **WaveProbe / Spoiler / Math Ingestion Thread** (chatgpt_md, 5KB) → [[Waveprobe]]
-- **Hutter Archive Format Specification — v1** (chatgpt_md, 5KB) → [[Hutter Prize Compression]]
-- **Chat Log Dump Manifest Summary** (chatgpt_md, 4KB) → [[Full Chat Log Dumps]]
+- **Tang Nano 9K Design Comparison** (chatgpt_md, 6KB) → [[Kimi-ISO Language Comparison]]
+- **observer admissible cavities theory** (research_article, 6KB) → [[Mass Number Theory]], [[Kimi-Ontological Manifold Theory Overview]], [[Kimi-Theory Cleanup via Review]]
+- **prior art semantic infrastructure talisman 20260401** (research_article, 5KB) → [[Internal Semantic Search]], [[Reactive Semantic Perturbation]], [[Semantic Eigenvector Bundle]], [[Semantic Engine Binding Derivation]], [[Semantic Graph Mining]], [[Semantic Prime Refraction]], [[Semantic RG Flow]]
+- **TSM-VDP Physics Audit & Unification Equation** (chatgpt_md, 5KB) → [[Master Equation Hole]], [[Equation Forest Index]], [[Kimi-N-Body Thermodynamic Equation]], [[Kimi-Spec 250 Equation Rigor]]
+- **WaveProbe / Spoiler / Math Ingestion Thread** (chatgpt_md, 5KB) → [[Waveprobe]], [[Data Ingestion Pipeline]], [[Kimi-Math Queries]], [[Kimi-Math Notation Extraction]], [[Kimi-Cross Domain Math Analysis]], [[Kimi-Universal Cross-Domain Math]], [[Chat Log 414-1205 Math Chat Rooms]]
+- **chat bigbang coulomb decompression 20260325** (research_article, 5KB) → [[Full Chat Log Dumps]]
+- **Hutter Archive Format Specification — v1** (chatgpt_md, 5KB) → [[Hutter Critical Analysis]], [[Hutter Prize Compression]], [[Hutter Tensor Field Analysis DAG]], [[Hutter Prize ISA]]
+- **Universal Power Interface (UPI) Spec** (chatgpt_md, 5KB) → [[Kimi-Universal Cross-Domain Math]], [[Single-State Trace Spec]]
+- **SAE Feature Frequency Analysis — 2026-04-05** (chatgpt_md, 5KB) → [[Deep Mining Pass 2026-05-06]], [[Hutter Critical Analysis]], [[CMYK Frequency Core]]
+- **Implementation Plan: Resonant Power Bridge (v5-N++)** (chatgpt_md, 4KB) → [[SLS Resonant Tubule Lattice]], [[TiddlyWiki ENE Bridge Plugin]], [[ENe Cognitive Refactor Plan]], [[S3C Sparkle Integration Plan]]
+- **universal early warning signals** (unknown, 4KB) → [[Mass Number Recursion Warning]], [[Kimi-Universal Cross-Domain Math]]
+- **chat operator fingerprint 20260325** (research_article, 4KB) → [[Full Chat Log Dumps]], [[Kimi-Algebraic Bracket Chat Room]], [[Chat Log 414-1043 Session]], [[Chat Log 414-1205 Math Chat Rooms]], [[Chat Log 414-1200 NII Core Security]], [[Chat Log 415-1130 DIAT Hardware]]
+- **chat iso as neural filter 20260325** (research_article, 4KB) → [[Full Chat Log Dumps]], [[Monster Filter Family]], [[Kimi-ISO Language Comparison]]
+- **dair agentic engineering wiki** (research_article, 4KB) → [[ENE Wiki Layer]]
+- **phase_transport_full_preprint** (article, 4KB) → [[Full Chat Log Dumps]]
+- **Chat Log Dump Manifest Summary** (chatgpt_md, 4KB) → [[Full Chat Log Dumps]], [[Chat Log 414-1043 Session]], [[Chat Log 414-1205 Math Chat Rooms]], [[Chat Log 414-1200 NII Core Security]], [[Chat Log 415-1130 DIAT Hardware]]
 - **120-Cell / Hachimoji / Twist Thread** (chatgpt_md, 3KB) → [[Hachimoji Pipeline]]
-- **GeomTREE — The Semi-Jack Accountability Protocol (5-Minute Pitch)** (chatgpt_md, 3KB) → [[GeomTREE Semi-Jack Physical Witness]]
-- **Fractal Fork Decompressor** (chatgpt_md, 3KB) → [[Engram Decompressor]], [[Menger Sponge Fractal Addressing]]
-- **Collective Substrate ISA: Official v2.9 Specification** (chatgpt_md, 3KB) → [[Hutter Prize ISA]]
-- **Adversarial MoE Audit: Resonant v5-N "Power Bridge"** (chatgpt_md, 2KB) → [[Peptide MoE]]
-- **Longevity Audit: Avalanche Manifold vs. Wear & Tear** (chatgpt_md, 2KB) → [[Manifold Flow]], [[Manifold Viewer]]
-- **Adversarial MoE Report: Resonant Power Bridge (v5-N++)** (chatgpt_md, 2KB) → [[Peptide MoE]]
-- **Spec: The Unified Integration Controller (UN-C)** (chatgpt_md, 2KB) → [[Unified Hypersurface]]
-- **chat gemini hutter physics blender 20260318** (research_article, 2KB) → [[Hutter Prize Compression]]
-- **Spec: DAG Isomorphism (The Unified Scaling Law)** (chatgpt_md, 2KB) → [[Unified Hypersurface]]
-- **Final Concept Audit: The Perpetual Passive Manifold (v5.0)** (chatgpt_md, 2KB) → [[Concept Vector 14]], [[Manifold Flow]], [[Manifold Viewer]]
-- **Spec: The VRT Rust Engine (Topological State Unity)** (chatgpt_md, 2KB) → [[Topological State Machine]]
-- **MoE Audit: Cheapest Full-Spectrum EM on a Chip** (chatgpt_md, 2KB) → [[Peptide MoE]]
+- **Audit: Infrastructure Power Stage (The "Power Bridge" Platform)** (chatgpt_md, 3KB) → [[TiddlyWiki ENE Bridge Plugin]]
+- **SOVEREIGN MATH MODEL DATABASE** (research_article, 3KB) → [[Kimi-Math Queries]], [[Kimi-θ-TaN Thermal Model]], [[Kimi-GraphML Manifold Model Improvement]], [[Kimi-Math Notation Extraction]], [[Kimi-Model Indexing and Equation Run]], [[Kimi-Cross Domain Math Analysis]], [[Kimi-Universal Cross-Domain Math]], [[Chat Log 414-1205 Math Chat Rooms]], [[Meme Math That Pays Rent]]
+- **Energy-Aware Non-Linear Decompression** (chatgpt_md, 3KB) → [[Hybrid Abelian Non-Abelian Sandpile]]
+- **Cognitive Thermo — Thermodynamic Path Exploration** (chatgpt_md, 3KB) → [[H1 Path-Finding Projector]], [[Soliton N-Space Path]], [[Thermodynamic Trinary Watchdog PLC]], [[ENe Cognitive Refactor Plan]], [[Kimi-N-Body Thermodynamic Equation]]
+- **Physical Audit: Sovereign Cement (Adversarial Review)** (chatgpt_md, 3KB) → [[Kimi-Multi-Expert OMTI Review]], [[Kimi-GitHub Repo Review]], [[Kimi-Theory Cleanup via Review]], [[Kimi-review stablity]], [[Kimi-Framework Re-Review]], [[Kimi-Review of Your Formula]]
+- **Technical Specification: AAS Soliton Sorting** (chatgpt_md, 3KB) → [[Compression and Soliton Mining]], [[Soliton N-Space Path]]
+- **Training mRNA Language Models Across 25 Species for $165** (chatgpt_md, 3KB) → [[Kimi-ISO Language Comparison]], [[Kimi-N-State Models for Organic Systems]]
+- **Evidence of the pair-instability gap from black-hole masses - Nature** (chatgpt_md, 3KB) → [[Master Equation Hole]]
+- **GeomTREE — The Semi-Jack Accountability Protocol (5-Minute Pitch)** (chatgpt_md, 3KB) → [[Address-First Search Protocol]], [[GeomTREE Semi-Jack Physical Witness]]
+- **Sparse Autoencoders on Codon Language Models** (chatgpt_md, 3KB) → [[Optical Codon Decoder]], [[Kimi-ISO Language Comparison]]
+- **Session Saga: Infohazard Containment Protocol (ICP)** (chatgpt_md, 3KB) → [[Address-First Search Protocol]]
+- **Fractal Fork Decompressor** (chatgpt_md, 3KB) → [[Engram Decompressor]], [[Fractal Extendable Hair Field]], [[Fractal Hash Triplet]], [[Menger Sponge Fractal Addressing]]
+- **behavioral merkle map** (research_article, 3KB) → [[Conversation Mining Source Map]], [[FAMM Fast Approximate Manifold Map]]
+- **Collective Substrate ISA: Official v2.9 Specification** (chatgpt_md, 3KB) → [[ENE Substrate Mining]], [[Substrate FTS Query Surface]], [[Hutter Prize ISA]]
+- **An ultra-high-resolution map of (dark) matter** (chatgpt_md, 3KB) → [[Conversation Mining Source Map]]
+- **Adversarial MoE Audit: Resonant v5-N "Power Bridge"** (chatgpt_md, 2KB) → [[SLS Resonant Tubule Lattice]], [[TiddlyWiki ENE Bridge Plugin]], [[Peptide MoE]]
+- **Spec: N-Space Resilience Strain Gauge** (chatgpt_md, 2KB) → [[Soliton N-Space Path]], [[Single-State Trace Spec]]
+- **Technical Specification: AAS-Enhanced VM Substrate** (chatgpt_md, 2KB) → [[ENE Substrate Mining]], [[Substrate FTS Query Surface]]
+- **Spec: The Sovereign Lattice (N-Space Structural Synthesis)** (chatgpt_md, 2KB) → [[SLS Resonant Tubule Lattice]], [[Soliton N-Space Path]], [[Structural eFuse Surface]], [[Single-State Trace Spec]]
+- **Technical Specification: AAS-Enhanced SHA256 Encoding** (chatgpt_md, 2KB) → [[PIST Shell Encoding]], [[Golden Angle Encoding]]
+- **Spec: N-Space Structural Synthesis (Topological 3D)** (chatgpt_md, 2KB) → [[Soliton N-Space Path]], [[Structural eFuse Surface]], [[Topological State Machine]], [[Single-State Trace Spec]]
+- **Longevity Audit: Avalanche Manifold vs. Wear & Tear** (chatgpt_md, 2KB) → [[Pathological Manifold Torus]], [[Manifold Flow]], [[FAMM Fast Approximate Manifold Map]], [[AVMR Adaptive Vector Manifold Representation]], [[Manifold Viewer]]
+- **Adversarial MoE Report: Resonant Power Bridge (v5-N++)** (chatgpt_md, 2KB) → [[SLS Resonant Tubule Lattice]], [[TiddlyWiki ENE Bridge Plugin]], [[Peptide MoE]]
+- **Deep Dive: The Metanarrative Harness (v5-N++)** (chatgpt_md, 2KB) → [[Deep Mining Pass 2026-05-06]]
+- **chat iso precompression 20260325** (research_article, 2KB) → [[Full Chat Log Dumps]], [[Kimi-Algebraic Bracket Chat Room]], [[Kimi-ISO Language Comparison]], [[Chat Log 414-1043 Session]], [[Chat Log 414-1205 Math Chat Rooms]], [[Chat Log 414-1200 NII Core Security]], [[Chat Log 415-1130 DIAT Hardware]]
+- **Chaos-First Test Rig Design (Resonant Power Bridge)** (chatgpt_md, 2KB) → [[Address-First Search Protocol]], [[SLS Resonant Tubule Lattice]], [[TiddlyWiki ENE Bridge Plugin]]
+- **Spec: Sovereign Cement (DAG-Enhanced 3DCP)** (chatgpt_md, 2KB) → [[Hutter Tensor Field Analysis DAG]], [[Single-State Trace Spec]]
+- **Spec: The Unified Integration Controller (UN-C)** (chatgpt_md, 2KB) → [[Unified Hypersurface]], [[S3C Sparkle Integration Plan]], [[Single-State Trace Spec]]
+- **Wormhole Mechanism Specification (Resonant Power Bridge)** (chatgpt_md, 2KB) → [[SLS Resonant Tubule Lattice]], [[TiddlyWiki ENE Bridge Plugin]]
+- **tunnel Mechanism Specification (Resonant Power Bridge)** (chatgpt_md, 2KB) → [[SLS Resonant Tubule Lattice]], [[TiddlyWiki ENE Bridge Plugin]]
+- **chat gemini hutter physics blender 20260318** (research_article, 2KB) → [[Full Chat Log Dumps]], [[Hutter Critical Analysis]], [[Hutter Prize Compression]], [[Hutter Tensor Field Analysis DAG]], [[Hutter Prize ISA]]
+- **Competitive Analysis: Resonant v5-G vs. Modern Silicon** (chatgpt_md, 2KB) → [[Hutter Critical Analysis]], [[SLS Resonant Tubule Lattice]]
+- **Sovereign Stack: Overview & Immediate Integration** (chatgpt_md, 2KB) → [[Research Stack Home]], [[Lean Semantics Overview]], [[Research Stack Architecture]], [[S3C Sparkle Integration Plan]]
+- **Spec: DAG Isomorphism (The Unified Scaling Law)** (chatgpt_md, 2KB) → [[Hutter Tensor Field Analysis DAG]], [[Unified Hypersurface]], [[Single-State Trace Spec]]
+- **Superluminal Correlations in Ensembles of Optical Phase Singularities** (chatgpt_md, 2KB) → [[Optical Codon Decoder]]
+- **Final Concept Audit: The Perpetual Passive Manifold (v5.0)** (chatgpt_md, 2KB) → [[Concept Anchor Settlement State]], [[Concept Vector 14]], [[Pathological Manifold Torus]], [[Manifold Flow]], [[FAMM Fast Approximate Manifold Map]], [[AVMR Adaptive Vector Manifold Representation]], [[Manifold Viewer]], [[Kimi-PBACS Final Version]]
+- **Spec: The VRT Rust Engine (Topological State Unity)** (chatgpt_md, 2KB) → [[Concept Anchor Settlement State]], [[Semantic Engine Binding Derivation]], [[Topological State Machine]], [[Single-State Trace Spec]]
+- **MoE Audit: Cheapest Full-Spectrum EM on a Chip** (chatgpt_md, 2KB) → [[Full Chat Log Dumps]], [[Peptide MoE]]
+- **ms myelin glucose signaling 2026 05 04** (research_article, 2KB) → [[Deep Mining Pass 2026-05-06]]
+- **Spec: The Sovereign Tower (N-Space Structural Prototype)** (chatgpt_md, 2KB) → [[Soliton N-Space Path]], [[Structural eFuse Surface]], [[Single-State Trace Spec]]
+- **Superluminal Correlations in Ensembles of Optical Phase Singularities** (chatgpt_md, 2KB) → [[Optical Codon Decoder]]
 - **Audit: VRT Software Resilience (MoE & Wolfram)** (chatgpt_md, 2KB) → [[Peptide MoE]]
-- **PCBWay Trace Routing Guide: TSM-VDP Wire-Centric Logic** (chatgpt_md, 2KB) → [[SLUQ Routing]]
-- **Spec: Sovereign Jenga (Discrete N-Space Manifold)** (chatgpt_md, 2KB) → [[Manifold Flow]], [[Manifold Viewer]]
-- **Audit: Topological State Unity (The Integration Capstone)** (chatgpt_md, 2KB) → [[Topological State Machine]]
-- **Spec: Resonant Topological State Unity Virtual Radio Telescope (VRT)** (chatgpt_md, 2KB) → [[Topological State Machine]]
-- **CANONICAL MATH MODELS** (research_article, 2KB) → [[Kimi-Math Queries]], [[Kimi-Math Notation Extraction]], [[Kimi-Cross Domain Math Analysis]], [[Kimi-Universal Cross-Domain Math]]
-- **Specification: Graph-Based State-Propagation VM (v1.1)** (chatgpt_md, 2KB) → [[Topological State Machine]]
-- **TSM-VDP CPU & Hardware Architecture Review** (chatgpt_md, 1KB) → [[Research Stack Architecture]], [[NIICore Architecture]], [[Kimi-review stablity]], [[Kimi-Framework Re-Review]]
+- **Proof & Directive: Sovereign Jenga Manufacturing** (chatgpt_md, 2KB) → [[Kimi-Lean Proof Completion]]
+- **PTOS Security Mapping (Hardware Hardening)** (chatgpt_md, 2KB) → [[Materials and Hardware Mining]], [[MoonRF ECP5 Hardware BFT Oracle]], [[Chat Log 414-1200 NII Core Security]], [[Chat Log 415-1130 DIAT Hardware]], [[Hardware Probing Research Index]]
+- **Bridge Protocol Specification: Bitcoin L2/L3 Integration** (chatgpt_md, 2KB) → [[Address-First Search Protocol]], [[TiddlyWiki ENE Bridge Plugin]], [[S3C Sparkle Integration Plan]]
+- **PCBWay Trace Routing Guide: TSM-VDP Wire-Centric Logic** (chatgpt_md, 2KB) → [[SLUQ Routing]], [[Single-State Trace Spec]]
+- **Metanarrative Goal Spec: The Target Function** (chatgpt_md, 2KB) → [[Single-State Trace Spec]]
+- **Long-Term Roadmap: Resonant Power Bridge** (chatgpt_md, 2KB) → [[SLS Resonant Tubule Lattice]], [[TiddlyWiki ENE Bridge Plugin]]
+- **Spec: Sovereign Jenga (Discrete N-Space Manifold)** (chatgpt_md, 2KB) → [[Soliton N-Space Path]], [[Pathological Manifold Torus]], [[Manifold Flow]], [[FAMM Fast Approximate Manifold Map]], [[AVMR Adaptive Vector Manifold Representation]], [[Manifold Viewer]], [[Single-State Trace Spec]]
+- **Geometry from quantum temporal correlations** (chatgpt_md, 2KB) → [[Kimi-Unsolved Geometry Problems]], [[Kimi-Protein Geometry and N-Fold]]
+- **Spec: 20 THz Quasicrystalline NEMS Array (MOCVD)** (chatgpt_md, 2KB) → [[Single-State Trace Spec]]
+- **chat substrate design 20260325** (research_article, 2KB) → [[ENE Substrate Mining]], [[Full Chat Log Dumps]], [[Substrate FTS Query Surface]], [[Kimi-Algebraic Bracket Chat Room]], [[Chat Log 414-1043 Session]], [[Chat Log 414-1205 Math Chat Rooms]], [[Chat Log 414-1200 NII Core Security]], [[Chat Log 415-1130 DIAT Hardware]]
+- **Audit: Topological State Unity (The Integration Capstone)** (chatgpt_md, 2KB) → [[Concept Anchor Settlement State]], [[Topological State Machine]], [[S3C Sparkle Integration Plan]], [[Single-State Trace Spec]]
+- **Report: VRT Software Stability & Resilience** (chatgpt_md, 2KB) → [[Kimi-Emergent Stability Power Networks]]
+- **Audit: Power Miser Optimization (v5-J)** (chatgpt_md, 2KB) → [[Kimi-Emergent Stability Power Networks]]
+- **Spec: Resonant Topological State Unity Virtual Radio Telescope (VRT)** (chatgpt_md, 2KB) → [[Concept Anchor Settlement State]], [[SLS Resonant Tubule Lattice]], [[Topological State Machine]], [[Single-State Trace Spec]]
+- **Model: Atmospheric Fracking Cycle (Londetite & Regolith)** (chatgpt_md, 2KB) → [[Kimi-θ-TaN Thermal Model]], [[Kimi-Model Indexing and Equation Run]]
+- **CANONICAL MATH MODELS** (research_article, 2KB) → [[Kimi-Math Queries]], [[Kimi-Math Notation Extraction]], [[Kimi-Cross Domain Math Analysis]], [[Kimi-N-State Models for Organic Systems]], [[Kimi-Universal Cross-Domain Math]], [[Kimi-Attention-Driven Canonical Action]], [[Chat Log 414-1205 Math Chat Rooms]], [[Meme Math That Pays Rent]]
+- **Geometry from quantum temporal correlations** (chatgpt_md, 2KB) → [[Kimi-Unsolved Geometry Problems]], [[Kimi-Protein Geometry and N-Fold]]
+- **Specification: Graph-Based State-Propagation VM (v1.1)** (chatgpt_md, 2KB) → [[Concept Anchor Settlement State]], [[Graph-Evolving RAG]], [[Semantic Graph Mining]], [[Topological State Machine]], [[Single-State Trace Spec]]
+- **BOM: Resonant Power Bridge Platform (v5-N++)** (chatgpt_md, 1KB) → [[SLS Resonant Tubule Lattice]], [[TiddlyWiki ENE Bridge Plugin]]
+- **TSM-VDP CPU & Hardware Architecture Review** (chatgpt_md, 1KB) → [[Materials and Hardware Mining]], [[MoonRF ECP5 Hardware BFT Oracle]], [[Research Stack Architecture]], [[NIICore Architecture]], [[Kimi-Multi-Expert OMTI Review]], [[Kimi-GitHub Repo Review]], [[Kimi-Theory Cleanup via Review]], [[Kimi-review stablity]], [[Kimi-Framework Re-Review]], [[Kimi-Review of Your Formula]], [[Chat Log 415-1130 DIAT Hardware]], [[Hardware Probing Research Index]]
+- **Spec: Londetite Energy Storage (Solid-State Fuel)** (chatgpt_md, 1KB) → [[Concept Anchor Settlement State]], [[Topological State Machine]], [[Single-State Trace Spec]]
+- **Tech Note: Projective Interlock (The Jenga Proof)** (chatgpt_md, 1KB) → [[Kimi-Lean Proof Completion]]
+- **Pre-SME Adversarial Audit: Persona Gene Drive Pass** (chatgpt_md, 1KB) → [[Deep Mining Pass 2026-05-06]]
+- **Graph-Based SQL Substrate: Technical Specification** (chatgpt_md, 1KB) → [[ENE Substrate Mining]], [[Graph-Evolving RAG]], [[Semantic Graph Mining]], [[Substrate FTS Query Surface]]
 - **TSM-VDP v5: Virtual Verilog Architecture** (chatgpt_md, 1KB) → [[Research Stack Architecture]], [[NIICore Architecture]]
-- **Audit: High-Density Manifold Computation (v5-G)** (chatgpt_md, 1KB) → [[Manifold Flow]], [[Manifold Viewer]]
-- **Virtual Radio Network & Custom Substrate Review** (chatgpt_md, 1KB) → [[Kimi-review stablity]], [[Kimi-Framework Re-Review]]
-- **Tech Note: Symbolic Calibration (The Math/Metaphor Bridge)** (chatgpt_md, 1KB) → [[Organoid Lambda Calibration]]
-- **Audit: Resonant v5-H "Hardened" Manifold** (chatgpt_md, 1KB) → [[Manifold Flow]], [[Manifold Viewer]]
-- **Audit: Sovereign Lattice Resilience (MoE)** (chatgpt_md, 1KB) → [[Peptide MoE]]
-- **Synthesis: Passive Logic Manifold (R-L-C)** (chatgpt_md, 1KB) → [[Manifold Flow]], [[Manifold Viewer]]
+- **Audit: High-Density Manifold Computation (v5-G)** (chatgpt_md, 1KB) → [[Pathological Manifold Torus]], [[Manifold Flow]], [[FAMM Fast Approximate Manifold Map]], [[AVMR Adaptive Vector Manifold Representation]], [[Manifold Viewer]]
+- **Wolfram Alpha Analytical Input Sheet (AAS-Integration)** (chatgpt_md, 1KB) → [[S3C Sparkle Integration Plan]]
+- **Virtual Radio Network & Custom Substrate Review** (chatgpt_md, 1KB) → [[ENE Substrate Mining]], [[Substrate FTS Query Surface]], [[Kimi-Multi-Expert OMTI Review]], [[Kimi-GitHub Repo Review]], [[Kimi-Theory Cleanup via Review]], [[Kimi-review stablity]], [[Kimi-Framework Re-Review]], [[Kimi-Review of Your Formula]]
+- **TSM-VDP: System Reliability & Stability Audit** (chatgpt_md, 1KB) → [[Kimi-Emergent Stability Power Networks]]
+- **Sovereign Math Model Database: Instance Report** (chatgpt_md, 1KB) → [[Kimi-Math Queries]], [[Kimi-θ-TaN Thermal Model]], [[Kimi-Math Notation Extraction]], [[Kimi-Model Indexing and Equation Run]], [[Kimi-Cross Domain Math Analysis]], [[Kimi-Universal Cross-Domain Math]], [[Chat Log 414-1205 Math Chat Rooms]]
+- **Audit: Thermodynamic Power Computation (Power-as-Logic)** (chatgpt_md, 1KB) → [[Thermodynamic Trinary Watchdog PLC]], [[Kimi-N-Body Thermodynamic Equation]]
+- **Tech Note: Mechanical Merkle Tree (Proof-of-State)** (chatgpt_md, 1KB) → [[Concept Anchor Settlement State]], [[Tree Fiddy Monster Assignment]], [[Topological State Machine]], [[Kimi-Lean Proof Completion]], [[Single-State Trace Spec]]
+- **PCB Design Specification: Graph VM Logic Substrate** (chatgpt_md, 1KB) → [[ENE Substrate Mining]], [[Graph-Evolving RAG]], [[Semantic Graph Mining]], [[Substrate FTS Query Surface]]
+- **Tech Note: Symbolic Calibration (The Math/Metaphor Bridge)** (chatgpt_md, 1KB) → [[Organoid Lambda Calibration]], [[TiddlyWiki ENE Bridge Plugin]]
+- **Audit: Quantum Evolution & Self-Organization (v5-K)** (chatgpt_md, 1KB) → [[ChatGPT Evolution and Acoustic Inference]]
+- **Audit: Sovereign Jenga Efficiency & Stability** (chatgpt_md, 1KB) → [[Kimi-Emergent Stability Power Networks]]
+- **Cognitive Load + Trinary Clock Integration** (chatgpt_md, 1KB) → [[Thermodynamic Trinary Watchdog PLC]], [[ENe Cognitive Refactor Plan]], [[S3C Sparkle Integration Plan]]
+- **Audit: Resonant v5-H "Hardened" Manifold** (chatgpt_md, 1KB) → [[SLS Resonant Tubule Lattice]], [[Pathological Manifold Torus]], [[Manifold Flow]], [[FAMM Fast Approximate Manifold Map]], [[AVMR Adaptive Vector Manifold Representation]], [[Manifold Viewer]], [[Kimi-Ontological Manifold Theory Overview]], [[Kimi-GraphML Manifold Model Improvement]]
+- **Audit: Holographic Fractal Connectome (Budget Edition)** (chatgpt_md, 1KB) → [[Fractal Extendable Hair Field]], [[Fractal Hash Triplet]], [[Menger Sponge Fractal Addressing]]
+- **Technical Specification: Verifiable Data Provenance (VDP)** (chatgpt_md, 1KB) → [[Genomic Data Compression Anchor]], [[Data Ingestion Pipeline]]
+- **Audit: Sovereign Lattice Resilience (MoE)** (chatgpt_md, 1KB) → [[SLS Resonant Tubule Lattice]], [[Peptide MoE]]
+- **Synthesis: Passive Logic Manifold (R-L-C)** (chatgpt_md, 1KB) → [[Pathological Manifold Torus]], [[Manifold Flow]], [[FAMM Fast Approximate Manifold Map]], [[AVMR Adaptive Vector Manifold Representation]], [[Manifold Viewer]], [[Kimi-Ontological Manifold Theory Overview]], [[Kimi-GraphML Manifold Model Improvement]]
+- **Audit: Passive R-L-C-P Field Computation (v5.0 Final)** (chatgpt_md, 1KB) → [[Fractal Extendable Hair Field]], [[Meta-Autotype Contingent Field]], [[Kimi-PBACS Final Version]]
+- **research ingestion index** (research_article, 1KB) → [[Research Stack Home]], [[Data Ingestion Pipeline]], [[Research Stack Architecture]], [[Equation Forest Index]], [[Swarm Learning Resources Index]], [[Hardware Probing Research Index]]
+- **Retrieval Comparison: NoSQL vs Collective Substrate** (chatgpt_md, 1KB) → [[ENE Substrate Mining]], [[Substrate FTS Query Surface]], [[Kimi-ISO Language Comparison]]
 - **bodega map** (research_article, 1KB) → [[Conversation Mining Source Map]], [[FAMM Fast Approximate Manifold Map]]
-- **Specification: Resonant Stack v5 Unified Field** (chatgpt_md, 1KB) → [[Unified Hypersurface]]
-- **Audit: Silent Manifold Phase-Filter (v5-G)** (chatgpt_md, 1KB) → [[Manifold Flow]], [[Manifold Viewer]]
-- **Audit: v5-G "Virtual ASIC" (Final Hardware Verification)** (chatgpt_md, 1KB) → [[ASIC Topology]]
-- **Plan: Categorize and Find Invariant Roots** (chatgpt_md, 1KB) → [[Kimi-Protein Structures and Invariant Roots]]
-- **Chat Log Dumps** (chatgpt_md, 1KB) → [[Full Chat Log Dumps]]
-- **research ingestion index** (research_article, 0KB) → [[Data Ingestion Pipeline]]
+- **Downloads Batch 2026-04-02** (chatgpt_md, 1KB) → [[Deep Mining Pass 2026-05-06]]
+- **Audit: Resonant v5-K "Resonant Echo"** (chatgpt_md, 1KB) → [[SLS Resonant Tubule Lattice]]
+- **Spec: Qutrit State-Space (Sovereign Signal Tier)** (chatgpt_md, 1KB) → [[Concept Anchor Settlement State]], [[Soliton N-Space Path]], [[Topological State Machine]], [[Single-State Trace Spec]]
+- **Deployment Guide: Resonant v5-B Village Power Stabilizer** (chatgpt_md, 1KB) → [[SLS Resonant Tubule Lattice]]
+- **Audit: Memistor-Adaptive Logic (The Widrow Approach)** (chatgpt_md, 1KB) → [[AMMR Adaptive Meshless Methods]]
+- **Specification: Resonant Stack v5 Unified Field** (chatgpt_md, 1KB) → [[Fractal Extendable Hair Field]], [[Meta-Autotype Contingent Field]], [[Research Stack Home]], [[SLS Resonant Tubule Lattice]], [[Unified Hypersurface]], [[Research Stack Architecture]]
+- **Audit: Silent Manifold Phase-Filter (v5-G)** (chatgpt_md, 1KB) → [[Monster Filter Family]], [[Pathological Manifold Torus]], [[Manifold Flow]], [[FAMM Fast Approximate Manifold Map]], [[AVMR Adaptive Vector Manifold Representation]], [[Manifold Viewer]]
+- **Audit: ISO-Standard Grid-Mesh (v5-F)** (chatgpt_md, 1KB) → [[Kimi-ISO Language Comparison]]
+- **Audit: Topological Memistor Emulation (The Filament Approach)** (chatgpt_md, 1KB) → [[Topological State Machine]]
+- **Audit: v5-G "Virtual ASIC" (Final Hardware Verification)** (chatgpt_md, 1KB) → [[Materials and Hardware Mining]], [[MoonRF ECP5 Hardware BFT Oracle]], [[SDR Void Hash Verification]], [[Virtual Display Blitter Compute Surface]], [[ASIC Topology]], [[Kimi-PBACS Final Version]], [[Chat Log 415-1130 DIAT Hardware]], [[Hardware Probing Research Index]]
+- **Plan: Categorize and Find Invariant Roots** (chatgpt_md, 1KB) → [[Compression and Soliton Mining]], [[Materials and Hardware Mining]], [[ENe Cognitive Refactor Plan]], [[Kimi-Protein Structures and Invariant Roots]], [[S3C Sparkle Integration Plan]]
+- **The House, The Player, and Zero** (chatgpt_md, 1KB) → [[Compression and Soliton Mining]], [[Materials and Hardware Mining]]
+- **Chat Log Dumps** (chatgpt_md, 1KB) → [[Full Chat Log Dumps]], [[Kimi-Algebraic Bracket Chat Room]], [[Chat Log 414-1043 Session]], [[Chat Log 414-1205 Math Chat Rooms]], [[Chat Log 414-1200 NII Core Security]], [[Chat Log 415-1130 DIAT Hardware]]
+- **session sovereign stack rev a boot 20260401** (research_article, 0KB) → [[Research Stack Home]], [[Research Stack Architecture]]
 
 ## Uncovered Sources (no tiddlers yet)
 
-- SOVEREIGN MATH MODEL DATABASE V2 (research_article, 107613KB) — `/home/allaun/Documents/Research Stack/shared-data/data/germane/research/SOVEREIGN_MATH_MODEL_DATABASE_V2.json`
 - HY_World_2_0 (article, 33418KB) — `/home/allaun/Documents/ingest/HY_World_2_0.pdf`
 - Agentic_Design_Patterns (article, 19626KB) — `/home/allaun/Documents/Research Stack/shared-data/data/germane/research/Agentic_Design_Patterns.pdf`
 - s41378-025-00875-w (article, 2616KB) — `/home/allaun/Documents/Research Stack/shared-data/data/germane/research/s41378-025-00875-w.pdf`
 - Yu 2025 ApJ 995 205 (unknown, 2063KB) — `/home/allaun/Documents/Research Stack/shared-data/data/germane/research/Yu_2025_ApJ_995_205.epub`
 - rsif.2022.0562 (article, 1258KB) — `/home/allaun/Documents/Research Stack/shared-data/data/germane/research/rsif.2022.0562.pdf`
-- possible duplicate chatgpt 414 1212 (chatgpt_md, 521KB) — `/home/allaun/Documents/ingest/possible_duplicate_chatgpt_414_1212.md`
-- kimik2.5 possible dupe 220pm 41426 (chatgpt_md, 443KB) — `/home/allaun/Documents/ingest/kimik2.5_possible_dupe_220pm_41426.md`
-- chagpt 414 1043 (chatgpt_md, 415KB) — `/home/allaun/Documents/ingest/chagpt-414-1043.md`
-- chagpt 414 1202 (chatgpt_md, 415KB) — `/home/allaun/Documents/ingest/chagpt-414-1202.md`
-- chatgpt conversation 415 1130am (chatgpt_md, 388KB) — `/home/allaun/Documents/ingest/chatgpt_conversation_415_1130am.md`
-- chatgpt ingest1 (chatgpt_md, 388KB) — `/home/allaun/Documents/Research Stack/shared-data/data/germane/research/chatgpt_ingest1.md`
-- possible duplicate pbacs chatgpt 414 1218 (chatgpt_md, 315KB) — `/home/allaun/Documents/ingest/possible_duplicate_pbacs_chatgpt_414_1218.md`
-- chagpt 414 1205 (chatgpt_md, 310KB) — `/home/allaun/Documents/ingest/chagpt-414-1205.md`
-- possible duplicate chatgpt 414 1210 (chatgpt_md, 310KB) — `/home/allaun/Documents/ingest/possible_duplicate_chatgpt_414_1210.md`
-- How_Malicious_AI_Swarms_Can_Threaten_Democracy%20%281%29 (article, 248KB) — `/home/allaun/Documents/ingest/How_Malicious_AI_Swarms_Can_Threaten_Democracy%20%281%29.pdf`
-- ChatGPT Evolution and Acoustic Inference (research_article, 243KB) — `/home/allaun/Documents/ingest/ChatGPT-Evolution_and_Acoustic_Inference.json`
-- chagpt 414 1200 (chatgpt_md, 238KB) — `/home/allaun/Documents/ingest/chagpt-414-1200.md`
-- post 196596937 20260506T000632Z (research_article, 228KB) — `/home/allaun/Documents/Research Stack/6-Documentation/articles/babbage-to-babcock/substack_bundle/substack_backups/post_196596937_20260506T000632Z.json`
-- possible duplicate chatgpt 414 1214 (chatgpt_md, 199KB) — `/home/allaun/Documents/ingest/possible_duplicate_chatgpt_414_1214.md`
-- post 196596937 20260506T000639Z (research_article, 198KB) — `/home/allaun/Documents/Research Stack/6-Documentation/articles/babbage-to-babcock/substack_bundle/substack_backups/post_196596937_20260506T000639Z.json`
 - manifest 20260318T231339Z (research_article, 172KB) — `/home/allaun/Documents/Research Stack/shared-data/data/germane/research/vault/manifest_20260318T231339Z.json`
-- possible duplicate chatgpt 414 1215 (chatgpt_md, 131KB) — `/home/allaun/Documents/ingest/possible_duplicate_chatgpt_414_1215.md`
 - attestestion file (chatgpt_md, 121KB) — `/home/allaun/Documents/Research Stack/shared-data/data/germane/research/attestestion_file.md`
-- ChatGPT TopologicalStateMachine Debugging (research_article, 74KB) — `/home/allaun/Documents/ingest/ChatGPT-TopologicalStateMachine_Debugging.json`
-- chagpt 414 1043 attestation index (research_article, 67KB) — `/home/allaun/Documents/ingest/chagpt-414-1043_attestation_index.json`
 - crown analogy (chatgpt_md, 58KB) — `/home/allaun/Documents/ingest/extraction required/crown analogy.md`
 - Autocatalysis Before Enzymes (chatgpt_md, 41KB) — `/home/allaun/Documents/ingest/Autocatalysis Before Enzymes.md`
-- freakingpaste (chatgpt_md, 41KB) — `/home/allaun/Documents/ingest/freakingpaste.md`
-- Comprehensive Physics and Engineering Learning Guide for Swarm (chatgpt_md, 38KB) — `/home/allaun/Documents/Research Stack/shared-data/data/germane/research/comprehensive_physics_engineering_guide.md`
 - OMT paper (unknown, 36KB) — `/home/allaun/Documents/ingest/extraction required/OMT_paper.docx`
-- From Babbage to Babcock (chatgpt_md, 33KB) — `/home/allaun/Documents/Research Stack/6-Documentation/articles/babbage-to-babcock/substack_bundle/post.md`
-- From Babbage to Babcock (chatgpt_md, 33KB) — `/home/allaun/Documents/Research Stack/6-Documentation/articles/babbage-to-babcock/article.md`
 - manifest 20260318T231057Z (research_article, 28KB) — `/home/allaun/Documents/Research Stack/shared-data/data/germane/research/vault/manifest_20260318T231057Z.json`
-- Comprehensive Technical Standards Learning Resource for Swarm Agents (chatgpt_md, 27KB) — `/home/allaun/Documents/Research Stack/shared-data/data/germane/research/comprehensive_technical_standards_resource.md`
 - experiment (unknown, 26KB) — `/home/allaun/Documents/ingest/extraction required/experiment.py`
 - experiment (1) (unknown, 26KB) — `/home/allaun/Documents/ingest/extraction required/experiment (1).py`
 - simulate omt (unknown, 24KB) — `/home/allaun/Documents/ingest/extraction required/simulate_omt.py`
 - simulate omt (1) (unknown, 24KB) — `/home/allaun/Documents/ingest/extraction required/simulate_omt (1).py`
-- Digital Platforms Learning Resource for Swarm Agents (chatgpt_md, 24KB) — `/home/allaun/Documents/Research Stack/shared-data/data/germane/research/digital_platforms_learning_resource.md`
-- Internet Protocols Learning Resource for Swarm Agents (chatgpt_md, 23KB) — `/home/allaun/Documents/Research Stack/shared-data/data/germane/research/internet_protocols_learning_resource.md`
 - simulate qubo (unknown, 20KB) — `/home/allaun/Documents/ingest/extraction required/simulate_qubo.py`
 - simulate qubo (1) (unknown, 20KB) — `/home/allaun/Documents/ingest/extraction required/simulate_qubo (1).py`
 - simulate qubo (2) (unknown, 20KB) — `/home/allaun/Documents/ingest/extraction required/simulate_qubo (2).py`
-- cmyk adapter experiment (unknown, 19KB) — `/home/allaun/Documents/ingest/extraction required/cmyk_adapter_experiment.py`
-- cmyk adapter experiment (1) (unknown, 19KB) — `/home/allaun/Documents/ingest/extraction required/cmyk_adapter_experiment (1).py`
 - simulate (unknown, 18KB) — `/home/allaun/Documents/ingest/extraction required/simulate.py`
 - simulate (1) (unknown, 18KB) — `/home/allaun/Documents/ingest/extraction required/simulate (1).py`
-- Mathematical Basis of the Meta-Ontological Inversion Machine (chatgpt_md, 17KB) — `/home/allaun/Documents/ingest/moim/docs/architecture/MOIM_MathematicalBasis.md`
 - TotalSignal AcceleratingLoop (chatgpt_md, 16KB) — `/home/allaun/Documents/ingest/moim/formal/lean/core/TotalSignal_AcceleratingLoop.txt`
 - nuvmap compress (unknown, 16KB) — `/home/allaun/Documents/ingest/extraction required/nuvmap_compress.py`
 - nuvmap compress (1) (unknown, 16KB) — `/home/allaun/Documents/ingest/extraction required/nuvmap_compress (1).py`
-- MOIM PROJECT INDEX v4.0 (chatgpt_md, 16KB) — `/home/allaun/Documents/ingest/moim/PROJECT_INDEX.md`
 - MOIM System Manifest v3.0 (chatgpt_md, 16KB) — `/home/allaun/Documents/ingest/moim/manifest/MOIM_SYSTEM_MANIFEST_v3.md`
 - nuvmap freq experiment (unknown, 15KB) — `/home/allaun/Documents/ingest/extraction required/nuvmap_freq_experiment.py`
 - nuvmap freq experiment (1) (unknown, 15KB) — `/home/allaun/Documents/ingest/extraction required/nuvmap_freq_experiment (1).py`
 - nuvmap freq experiment (2) (unknown, 15KB) — `/home/allaun/Documents/ingest/extraction required/nuvmap_freq_experiment (2).py`
 - nuvmap freq experiment (3) (unknown, 15KB) — `/home/allaun/Documents/ingest/extraction required/nuvmap_freq_experiment (3).py`
-- Finer Hardware Probing Methods - Research Summary (chatgpt_md, 15KB) — `/home/allaun/Documents/Research Stack/shared-data/data/germane/research/finer_probing_methods_research.md`
 - CMYKFrequencyCore (unknown, 14KB) — `/home/allaun/Documents/ingest/extraction required/CMYKFrequencyCore`
-- Mesa Drivers for AMD GPU - HDMI/DisplayPort Support Research (chatgpt_md, 14KB) — `/home/allaun/Documents/Research Stack/shared-data/data/germane/research/mesa_driver_hdmi_displayport_research.md`
-- AMMR AVMR TruthTest test vectors (research_article, 14KB) — `/home/allaun/Documents/Research Stack/shared-data/data/germane/research/REVISED_EQUATIONS/AMMR_AVMR_TruthTest_test_vectors.json`
 - SovereignMathModel test vectors (research_article, 14KB) — `/home/allaun/Documents/Research Stack/shared-data/data/germane/research/REVISED_EQUATIONS/SovereignMathModel_test_vectors.json`
-- Bridge Model Module Guide (chatgpt_md, 13KB) — `/home/allaun/Documents/ingest/BridgeModel_Module_Guide.md`
-- Bridge Model Module Guide (chatgpt_md, 13KB) — `/home/allaun/Documents/ingest/Chatgpt_415508PM_latest_model_exports_bundle/BridgeModel_Module_Guide.md`
 - 四力几何推导 (kimi_json, 13KB) — `/home/allaun/Documents/ingest/Kimi-四力几何推导.json`
-- GPU Optimization Guide for Swarm Learning (chatgpt_md, 13KB) — `/home/allaun/Documents/Research Stack/shared-data/data/germane/research/gpu_optimization_guide.md`
 - MOIM System Manifest v2.0 (chatgpt_md, 12KB) — `/home/allaun/Documents/ingest/moim/manifest/MOIM_SYSTEM_MANIFEST_v2.md`
 - Makefile (unknown, 11KB) — `/home/allaun/Documents/ingest/moim/build/Makefile`
-- ISO Standards Learning Resource for Swarm Agents (chatgpt_md, 11KB) — `/home/allaun/Documents/Research Stack/shared-data/data/germane/research/iso_standards_learning_resource.md`
-- Single-State Trace Spec v0.1 (chatgpt_md, 11KB) — `/home/allaun/Documents/Research Stack/shared-data/data/germane/research/hutter/single_state_trace_spec.md`
-- SSD PCIe Side Channel Probing (chatgpt_md, 11KB) — `/home/allaun/Documents/Research Stack/shared-data/data/germane/research/ssd_pcie_side_channel_probing.md`
 - omt pruning experiment (unknown, 10KB) — `/home/allaun/Documents/ingest/extraction required/omt_pruning_experiment.py`
 - Tasks (chatgpt_md, 10KB) — `/home/allaun/Documents/Research Stack/shared-data/data/germane/research/task.md`
-- HDMI Cleanroom Reverse Engineering Research (chatgpt_md, 10KB) — `/home/allaun/Documents/Research Stack/shared-data/data/germane/research/hdmi_cleanroom_reverse_engineering_research.md`
 - The Ending (chatgpt_md, 10KB) — `/home/allaun/Documents/Research Stack/shared-data/data/germane/research/hutter/THE_ENDING.md`
-- Keyboard, Mouse, and Monitor Device Research (chatgpt_md, 10KB) — `/home/allaun/Documents/Research Stack/shared-data/data/germane/research/keyboard_mouse_monitor_research.md`
-- Meme Math That Pays Rent (chatgpt_md, 10KB) — `/home/allaun/Documents/Research Stack/6-Documentation/articles/meme-math-that-pays-rent/article.md`
-- Meme Math That Pays Rent (chatgpt_md, 10KB) — `/home/allaun/Documents/Research Stack/6-Documentation/articles/meme-math-that-pays-rent/substack_bundle/post.md`
-- SSD Comprehensive Analysis (chatgpt_md, 9KB) — `/home/allaun/Documents/Research Stack/shared-data/data/germane/research/ssd_comprehensive_analysis.md`
-- RAM Addressing Scheme and Circuit Wiring Analysis (chatgpt_md, 9KB) — `/home/allaun/Documents/Research Stack/shared-data/data/germane/research/ram_addressing_circuit_wiring_analysis.md`
-- S3C Sparkle Integration Plan (chatgpt_md, 9KB) — `/home/allaun/Documents/Research Stack/shared-data/data/germane/research/s3c_sparkle_integration_plan.md`
 - behavioral taxonomy merkle (research_article, 9KB) — `/home/allaun/Documents/Research Stack/shared-data/data/germane/research/REVISED_EQUATIONS/behavioral_taxonomy_merkle.json`
-- Session Record: KDA-18 C20-C31 + BFT Judge Wiring (chatgpt_md, 9KB) — `/home/allaun/Documents/Research Stack/shared-data/data/germane/research/session-kda18-c20-c31-bft-wiring-20260405.md`
-- Biological Systems Learning Guide for Swarm (chatgpt_md, 9KB) — `/home/allaun/Documents/Research Stack/shared-data/data/germane/research/biological_systems_guide.md`
-- Realtek RTL8126 MMIO Security Analysis (chatgpt_md, 8KB) — `/home/allaun/Documents/Research Stack/shared-data/data/germane/research/realtek_rtl8126_mmio_security_analysis.md`
 - behavioral taxonomy merkle (chatgpt_md, 8KB) — `/home/allaun/Documents/Research Stack/shared-data/data/germane/research/REVISED_EQUATIONS/behavioral_taxonomy_merkle.txt`
-- DisplayPort Cable Length and Travel Path Estimation (chatgpt_md, 8KB) — `/home/allaun/Documents/Research Stack/shared-data/data/germane/research/displayport_cable_length_timing_estimation.md`
-- sovereign invariant analysis (research_article, 8KB) — `/home/allaun/Documents/Research Stack/shared-data/data/germane/research/REVISED_EQUATIONS/sovereign_invariant_analysis.json`
-- DisplayPort Cable Inference Research (chatgpt_md, 8KB) — `/home/allaun/Documents/Research Stack/shared-data/data/germane/research/displayport_cable_inference_research.md`
 - SAE Feature Scraper — Design Record (chatgpt_md, 7KB) — `/home/allaun/Documents/Research Stack/shared-data/data/germane/research/design-sae-feature-scraper-20260405.md`
-- Walkthrough: The Sovereign Stack (Integration Validated) (chatgpt_md, 7KB) — `/home/allaun/Documents/Research Stack/shared-data/data/germane/research/walkthrough.md`
-- W3C Standards Learning Resource for Swarm Agents (chatgpt_md, 7KB) — `/home/allaun/Documents/Research Stack/shared-data/data/germane/research/w3c_standards_learning_resource.md`
 - The Approach — Feature-Byte Mirror v3 (chatgpt_md, 7KB) — `/home/allaun/Documents/Research Stack/shared-data/data/germane/research/hutter/APPROACH.md`
-- HDMI Cable Inference Research (chatgpt_md, 7KB) — `/home/allaun/Documents/Research Stack/shared-data/data/germane/research/hdmi_cable_inference_research.md`
-- Tang Nano 9K Design Comparison (chatgpt_md, 6KB) — `/home/allaun/Documents/Research Stack/shared-data/data/germane/research/tang_nano_9k_design_comparison.md`
-- TSM-VDP Physics Audit & Unification Equation (chatgpt_md, 5KB) — `/home/allaun/Documents/Research Stack/shared-data/data/germane/research/physics_audit.md`
-- chat bigbang coulomb decompression 20260325 (research_article, 5KB) — `/home/allaun/Documents/Research Stack/shared-data/data/germane/research/chat-bigbang-coulomb-decompression-20260325.json`
-- Universal Power Interface (UPI) Spec (chatgpt_md, 5KB) — `/home/allaun/Documents/Research Stack/shared-data/data/germane/research/universal_power_interface.md`
-- SAE Feature Frequency Analysis — 2026-04-05 (chatgpt_md, 5KB) — `/home/allaun/Documents/Research Stack/shared-data/data/germane/research/chat-sae-feature-frequency-analysis-20260405.md`
 - build manifest (unknown, 5KB) — `/home/allaun/Documents/Research Stack/6-Documentation/chat-log-dumps/build_manifest.py`
-- Implementation Plan: Resonant Power Bridge (v5-N++) (chatgpt_md, 4KB) — `/home/allaun/Documents/Research Stack/shared-data/data/germane/research/implementation_plan.md`
-- universal early warning signals (unknown, 4KB) — `/home/allaun/Documents/Research Stack/shared-data/data/germane/research/universal_early_warning_signals.html`
-- chat operator fingerprint 20260325 (research_article, 4KB) — `/home/allaun/Documents/Research Stack/shared-data/data/germane/research/chat-operator-fingerprint-20260325.json`
-- chat iso as neural filter 20260325 (research_article, 4KB) — `/home/allaun/Documents/Research Stack/shared-data/data/germane/research/chat-iso-as-neural-filter-20260325.json`
-- dair agentic engineering wiki (research_article, 4KB) — `/home/allaun/Documents/Research Stack/shared-data/data/germane/research/dair_agentic_engineering_wiki.json`
-- phase_transport_full_preprint (article, 4KB) — `/home/allaun/Documents/Research Stack/shared-data/data/germane/research/phase_transport_full_preprint.pdf`
-- Audit: Infrastructure Power Stage (The "Power Bridge" Platform) (chatgpt_md, 3KB) — `/home/allaun/Documents/Research Stack/shared-data/data/germane/research/infrastructure_alchemy_audit.md`
-- SOVEREIGN MATH MODEL DATABASE (research_article, 3KB) — `/home/allaun/Documents/Research Stack/shared-data/data/germane/research/SOVEREIGN_MATH_MODEL_DATABASE.json`
-- Energy-Aware Non-Linear Decompression (chatgpt_md, 3KB) — `/home/allaun/Documents/Research Stack/shared-data/data/germane/research/hutter/ENERGY_AWARE_DECOMPRESSION.md`
-- Cognitive Thermo — Thermodynamic Path Exploration (chatgpt_md, 3KB) — `/home/allaun/Documents/Research Stack/shared-data/data/germane/research/hutter/COGNITIVE_THERMO_README.md`
-- Physical Audit: Sovereign Cement (Adversarial Review) (chatgpt_md, 3KB) — `/home/allaun/Documents/Research Stack/shared-data/data/germane/research/sovereign_cement_physics_audit.md`
-- Technical Specification: AAS Soliton Sorting (chatgpt_md, 3KB) — `/home/allaun/Documents/Research Stack/shared-data/data/germane/research/aas_soliton_sorting_spec.md`
-- Training mRNA Language Models Across 25 Species for $165 (chatgpt_md, 3KB) — `/home/allaun/Documents/Research Stack/shared-data/data/germane/research/training-mrna-language-models-across-25-species-for-165.md`
-- Evidence of the pair-instability gap from black-hole masses - Nature (chatgpt_md, 3KB) — `/home/allaun/Documents/Research Stack/shared-data/data/germane/research/evidence-of-the-pair-instability-gap-from-black-hole-masses-nature.md`
-- Sparse Autoencoders on Codon Language Models (chatgpt_md, 3KB) — `/home/allaun/Documents/Research Stack/shared-data/data/germane/research/sparse-autoencoders-on-codon-language-models.md`
-- Session Saga: Infohazard Containment Protocol (ICP) (chatgpt_md, 3KB) — `/home/allaun/Documents/Research Stack/shared-data/data/germane/research/SESSION_SAGA_INFOHAZARD_CONTAINMENT.md`
-- behavioral merkle map (research_article, 3KB) — `/home/allaun/Documents/Research Stack/shared-data/data/germane/research/REVISED_EQUATIONS/behavioral_merkle_map.json`
-- An ultra-high-resolution map of (dark) matter (chatgpt_md, 3KB) — `/home/allaun/Documents/Research Stack/shared-data/data/germane/research/scognamiglio-an-ultra-high-resolution-map-of-dark-matter-2026.md`
 - Expert Audit: Cheap MEMS as Signal Waveguides (chatgpt_md, 2KB) — `/home/allaun/Documents/Research Stack/shared-data/data/germane/research/mems_waveguide_audit.md`
-- Spec: N-Space Resilience Strain Gauge (chatgpt_md, 2KB) — `/home/allaun/Documents/Research Stack/shared-data/data/germane/research/n_space_strain_gauge_spec.md`
-- Technical Specification: AAS-Enhanced VM Substrate (chatgpt_md, 2KB) — `/home/allaun/Documents/Research Stack/shared-data/data/germane/research/aas_vm_substrate_integration.md`
-- Spec: The Sovereign Lattice (N-Space Structural Synthesis) (chatgpt_md, 2KB) — `/home/allaun/Documents/Research Stack/shared-data/data/germane/research/sovereign_lattice_spec.md`
 - Technical Specification: AAS-Optimized Quantum Annealing (chatgpt_md, 2KB) — `/home/allaun/Documents/Research Stack/shared-data/data/germane/research/aas_quantum_annealing_optimization.md`
 - google doc sources (chatgpt_md, 2KB) — `/home/allaun/Documents/Research Stack/shared-data/data/germane/research/google_doc_sources.txt`
-- Technical Specification: AAS-Enhanced SHA256 Encoding (chatgpt_md, 2KB) — `/home/allaun/Documents/Research Stack/shared-data/data/germane/research/aas_sha256_encoding_enhancement.md`
-- Spec: N-Space Structural Synthesis (Topological 3D) (chatgpt_md, 2KB) — `/home/allaun/Documents/Research Stack/shared-data/data/germane/research/n_space_structural_spec.md`
 - Physicists Found Something That Can Move Faster Than Light: The Darkness Inside It (chatgpt_md, 2KB) — `/home/allaun/Documents/Research Stack/shared-data/data/germane/research/physicists-found-something-that-can-move-faster-than-light-the-darkness-inside-it.md`
 - Technical Specification: AAS-Enhanced Pi Computation (chatgpt_md, 2KB) — `/home/allaun/Documents/Research Stack/shared-data/data/germane/research/aas_pi_computation_enhancement.md`
-- Deep Dive: The Metanarrative Harness (v5-N++) (chatgpt_md, 2KB) — `/home/allaun/Documents/Research Stack/shared-data/data/germane/research/metanarrative_harness_deep_dive.md`
-- chat iso precompression 20260325 (research_article, 2KB) — `/home/allaun/Documents/Research Stack/shared-data/data/germane/research/chat-iso-precompression-20260325.json`
-- Chaos-First Test Rig Design (Resonant Power Bridge) (chatgpt_md, 2KB) — `/home/allaun/Documents/Research Stack/shared-data/data/germane/research/test_rig_design.md`
-- Spec: Sovereign Cement (DAG-Enhanced 3DCP) (chatgpt_md, 2KB) — `/home/allaun/Documents/Research Stack/shared-data/data/germane/research/sovereign_cement_spec.md`
 - Technical Report: Multi-Variable Sensitivity & Entropy Breakdown (chatgpt_md, 2KB) — `/home/allaun/Documents/Research Stack/shared-data/data/germane/research/material_sensitivity_analysis_v1.md`
-- Wormhole Mechanism Specification (Resonant Power Bridge) (chatgpt_md, 2KB) — `/home/allaun/Documents/Research Stack/shared-data/data/germane/research/wormhole_mechanism_spec.md`
-- tunnel Mechanism Specification (Resonant Power Bridge) (chatgpt_md, 2KB) — `/home/allaun/Documents/Research Stack/shared-data/data/germane/research/tunnel_mechanism_spec.md`
-- Competitive Analysis: Resonant v5-G vs. Modern Silicon (chatgpt_md, 2KB) — `/home/allaun/Documents/Research Stack/shared-data/data/germane/research/competitive_analysis.md`
-- Sovereign Stack: Overview & Immediate Integration (chatgpt_md, 2KB) — `/home/allaun/Documents/Research Stack/shared-data/data/germane/research/sovereign_stack_overview.md`
 - TSM-VDP: Failure Mode Simulation (chatgpt_md, 2KB) — `/home/allaun/Documents/Research Stack/shared-data/data/germane/research/failure_mode_simulation.md`
-- Superluminal Correlations in Ensembles of Optical Phase Singularities (chatgpt_md, 2KB) — `/home/allaun/Documents/Research Stack/shared-data/data/germane/research/bucher-superluminal-correlations-in-ensembles-of-optical-phase-singularities-2025.md`
 - TSM-VDP (chatgpt_md, 2KB) — `/home/allaun/Documents/Research Stack/shared-data/data/germane/research/planck_clock_audit.md`
-- ms myelin glucose signaling 2026 05 04 (research_article, 2KB) — `/home/allaun/Documents/Research Stack/shared-data/data/germane/research/ms_myelin_glucose_signaling_2026-05-04.json`
-- Spec: The Sovereign Tower (N-Space Structural Prototype) (chatgpt_md, 2KB) — `/home/allaun/Documents/Research Stack/shared-data/data/germane/research/sovereign_tower_spec.md`
-- Superluminal Correlations in Ensembles of Optical Phase Singularities (chatgpt_md, 2KB) — `/home/allaun/Documents/Research Stack/shared-data/data/germane/research/superluminal-correlations-in-ensembles-of-optical-phase-singularities.md`
-- Proof & Directive: Sovereign Jenga Manufacturing (chatgpt_md, 2KB) — `/home/allaun/Documents/Research Stack/shared-data/data/germane/research/sovereign_jenga_gcode_proof.md`
-- PTOS Security Mapping (Hardware Hardening) (chatgpt_md, 2KB) — `/home/allaun/Documents/Research Stack/shared-data/data/germane/research/ptos_security_mapping.md`
-- Bridge Protocol Specification: Bitcoin L2/L3 Integration (chatgpt_md, 2KB) — `/home/allaun/Documents/Research Stack/shared-data/data/germane/research/bridge_protocol_spec.md`
-- Metanarrative Goal Spec: The Target Function (chatgpt_md, 2KB) — `/home/allaun/Documents/Research Stack/shared-data/data/germane/research/metanarrative_goal_spec.md`
-- Long-Term Roadmap: Resonant Power Bridge (chatgpt_md, 2KB) — `/home/allaun/Documents/Research Stack/shared-data/data/germane/research/long_term_roadmap.md`
 - Tech Note: N->3 Projection Logic (The Streamline Algorithm) (chatgpt_md, 2KB) — `/home/allaun/Documents/Research Stack/shared-data/data/germane/research/n_space_projection_logic.md`
-- Geometry from quantum temporal correlations (chatgpt_md, 2KB) — `/home/allaun/Documents/Research Stack/shared-data/data/germane/research/geometry-from-quantum-temporal-correlations.md`
-- Spec: 20 THz Quasicrystalline NEMS Array (MOCVD) (chatgpt_md, 2KB) — `/home/allaun/Documents/Research Stack/shared-data/data/germane/research/nems_fracking_array_spec.md`
 - Exploratory Audit: Ambient EM Harvesting (v5-H Expansion) (chatgpt_md, 2KB) — `/home/allaun/Documents/Research Stack/shared-data/data/germane/research/ambient_em_harvesting_audit.md`
-- chat substrate design 20260325 (research_article, 2KB) — `/home/allaun/Documents/Research Stack/shared-data/data/germane/research/chat-substrate-design-20260325.json`
-- Report: VRT Software Stability & Resilience (chatgpt_md, 2KB) — `/home/allaun/Documents/Research Stack/shared-data/data/germane/research/vrt_stability_report.md`
-- Audit: Power Miser Optimization (v5-J) (chatgpt_md, 2KB) — `/home/allaun/Documents/Research Stack/shared-data/data/germane/research/power_miser_optimization.md`
 - Tang Nano 9K Pinout Information (chatgpt_md, 2KB) — `/home/allaun/Documents/Research Stack/shared-data/data/germane/research/tang_nano_9k_pinout.md`
-- Model: Atmospheric Fracking Cycle (Londetite & Regolith) (chatgpt_md, 2KB) — `/home/allaun/Documents/Research Stack/shared-data/data/germane/research/fracking_cycle_model.md`
-- Geometry from quantum temporal correlations (chatgpt_md, 2KB) — `/home/allaun/Documents/Research Stack/shared-data/data/germane/research/fullwood-geometry-from-quantum-temporal-correlations-2025.md`
-- categories (unknown, 2KB) — `/home/allaun/Documents/Research Stack/6-Documentation/articles/categories.yml`
-- BOM: Resonant Power Bridge Platform (v5-N++) (chatgpt_md, 1KB) — `/home/allaun/Documents/Research Stack/shared-data/data/germane/research/hardware_bom_v5n.md`
-- Spec: Londetite Energy Storage (Solid-State Fuel) (chatgpt_md, 1KB) — `/home/allaun/Documents/Research Stack/shared-data/data/germane/research/londetite_storage_spec.md`
-- Tech Note: Projective Interlock (The Jenga Proof) (chatgpt_md, 1KB) — `/home/allaun/Documents/Research Stack/shared-data/data/germane/research/projective_interlock_logic.md`
 - Audit: Pentagonal Phased Array (v5-M) (chatgpt_md, 1KB) — `/home/allaun/Documents/Research Stack/shared-data/data/germane/research/phased_array_audit.md`
-- Pre-SME Adversarial Audit: Persona Gene Drive Pass (chatgpt_md, 1KB) — `/home/allaun/Documents/Research Stack/shared-data/data/germane/research/pre_sme_adversarial_audit.md`
-- Graph-Based SQL Substrate: Technical Specification (chatgpt_md, 1KB) — `/home/allaun/Documents/Research Stack/shared-data/data/germane/research/graph_sql_deep_dive.md`
-- Wolfram Alpha Analytical Input Sheet (AAS-Integration) (chatgpt_md, 1KB) — `/home/allaun/Documents/Research Stack/shared-data/data/germane/research/wolfram_alpha_input_sheet.md`
-- TSM-VDP: System Reliability & Stability Audit (chatgpt_md, 1KB) — `/home/allaun/Documents/Research Stack/shared-data/data/germane/research/grey_goo_safety_audit.md`
-- Sovereign Math Model Database: Instance Report (chatgpt_md, 1KB) — `/home/allaun/Documents/Research Stack/shared-data/data/germane/research/SOVEREIGN_MATH_DATABASE_INSTANCE.md`
-- Audit: Thermodynamic Power Computation (Power-as-Logic) (chatgpt_md, 1KB) — `/home/allaun/Documents/Research Stack/shared-data/data/germane/research/wire_centric_computing_audit.md`
-- Tech Note: Mechanical Merkle Tree (Proof-of-State) (chatgpt_md, 1KB) — `/home/allaun/Documents/Research Stack/shared-data/data/germane/research/mechanical_merkle_tree_logic.md`
-- PCB Design Specification: Graph VM Logic Substrate (chatgpt_md, 1KB) — `/home/allaun/Documents/Research Stack/shared-data/data/germane/research/substrate_pcb_spec.md`
 - Audit: Plasma Gasification (Waste-Free NEMS Mode) (chatgpt_md, 1KB) — `/home/allaun/Documents/Research Stack/shared-data/data/germane/research/plasma_gasification_audit.md`
 - Audit: Closed-Loop Regolith Fixation (Fertility Cycle) (chatgpt_md, 1KB) — `/home/allaun/Documents/Research Stack/shared-data/data/germane/research/regolith_fixation_audit.md`
-- Audit: Quantum Evolution & Self-Organization (v5-K) (chatgpt_md, 1KB) — `/home/allaun/Documents/Research Stack/shared-data/data/germane/research/quantum_evolution_audit.md`
-- Audit: Sovereign Jenga Efficiency & Stability (chatgpt_md, 1KB) — `/home/allaun/Documents/Research Stack/shared-data/data/germane/research/jenga_efficiency_audit.md`
 - adversarial rebuttal (chatgpt_md, 1KB) — `/home/allaun/Documents/Research Stack/shared-data/data/germane/research/adversarial_rebuttal.md`
-- Cognitive Load + Trinary Clock Integration (chatgpt_md, 1KB) — `/home/allaun/Documents/Research Stack/shared-data/data/germane/research/hutter/COGNITIVE_LOAD_INTEGRATION.md`
 - Audit: IR Rayleigh Entropy Sensing (v5-N) (chatgpt_md, 1KB) — `/home/allaun/Documents/Research Stack/shared-data/data/germane/research/rayleigh_entropy_audit.md`
-- Audit: Holographic Fractal Connectome (Budget Edition) (chatgpt_md, 1KB) — `/home/allaun/Documents/Research Stack/shared-data/data/germane/research/fractal_connectome_audit.md`
-- Technical Specification: Verifiable Data Provenance (VDP) (chatgpt_md, 1KB) — `/home/allaun/Documents/Research Stack/shared-data/data/germane/research/verifiable_provenance_spec.md`
-- Audit: Passive R-L-C-P Field Computation (v5.0 Final) (chatgpt_md, 1KB) — `/home/allaun/Documents/Research Stack/shared-data/data/germane/research/passive_field_audit.md`
-- Retrieval Comparison: NoSQL vs Collective Substrate (chatgpt_md, 1KB) — `/home/allaun/Documents/Research Stack/shared-data/data/germane/research/retrieval_comparison.md`
-- Downloads Batch 2026-04-02 (chatgpt_md, 1KB) — `/home/allaun/Documents/Research Stack/shared-data/data/germane/research/downloads-batch-20260402.md`
 - Audit: 1000-Hour Extreme Stress Test (v5-B) (chatgpt_md, 1KB) — `/home/allaun/Documents/Research Stack/shared-data/data/germane/research/village_stabilizer_audit.md`
-- Audit: Resonant v5-K "Resonant Echo" (chatgpt_md, 1KB) — `/home/allaun/Documents/Research Stack/shared-data/data/germane/research/resonant_echo_v5k_audit.md`
 - Audit: STARK AIR Constraints (v5-L) (chatgpt_md, 1KB) — `/home/allaun/Documents/Research Stack/shared-data/data/germane/research/stark_air_audit.md`
-- Spec: Qutrit State-Space (Sovereign Signal Tier) (chatgpt_md, 1KB) — `/home/allaun/Documents/Research Stack/shared-data/data/germane/research/qutrit_state_spec.md`
-- Deployment Guide: Resonant v5-B Village Power Stabilizer (chatgpt_md, 1KB) — `/home/allaun/Documents/Research Stack/shared-data/data/germane/research/village_deployment_guide.md`
-- Audit: Memistor-Adaptive Logic (The Widrow Approach) (chatgpt_md, 1KB) — `/home/allaun/Documents/Research Stack/shared-data/data/germane/research/memistor_logic_audit.md`
 - Audit: Phase-Change Thermopile (v5-H) (chatgpt_md, 1KB) — `/home/allaun/Documents/Research Stack/shared-data/data/germane/research/thermopile_synthesis_audit.md`
 - Audit: n-ZK-STARK Attestation (v5-L) (chatgpt_md, 1KB) — `/home/allaun/Documents/Research Stack/shared-data/data/germane/research/zk_stark_attestation_audit.md`
-- Audit: ISO-Standard Grid-Mesh (v5-F) (chatgpt_md, 1KB) — `/home/allaun/Documents/Research Stack/shared-data/data/germane/research/grid_mesh_audit.md`
-- Audit: Topological Memistor Emulation (The Filament Approach) (chatgpt_md, 1KB) — `/home/allaun/Documents/Research Stack/shared-data/data/germane/research/topological_memistor_audit.md`
 - Audit: Cascading Voltage Wave Resilience (v5-E) (chatgpt_md, 1KB) — `/home/allaun/Documents/Research Stack/shared-data/data/germane/research/cascade_resilience_audit.md`
 - Audit: 100,000-Hour "Nightmare Grid" Endurance (Steroid Level) (chatgpt_md, 1KB) — `/home/allaun/Documents/Research Stack/shared-data/data/germane/research/longevity_audit_100k.md`
-- The House, The Player, and Zero (chatgpt_md, 1KB) — `/home/allaun/Documents/Research Stack/shared-data/data/germane/research/hutter/COGNITIVE_WHEEL_README.md`
-- session sovereign stack rev a boot 20260401 (research_article, 0KB) — `/home/allaun/Documents/Research Stack/shared-data/data/germane/research/session-sovereign-stack-rev-a-boot-20260401.json`
 - manifest 20260318T231040Z (research_article, 0KB) — `/home/allaun/Documents/Research Stack/shared-data/data/germane/research/vault/manifest_20260318T231040Z.json`
 - manifest (research_article, 0KB) — `/home/allaun/Documents/Research Stack/6-Documentation/articles/babbage-to-babcock/substack_bundle/manifest.json`
-- metadata (unknown, 0KB) — `/home/allaun/Documents/Research Stack/6-Documentation/articles/babbage-to-babcock/metadata.yml`
 - Articles (chatgpt_md, 0KB) — `/home/allaun/Documents/Research Stack/6-Documentation/articles/README.md`
 - manifest (research_article, 0KB) — `/home/allaun/Documents/Research Stack/6-Documentation/articles/meme-math-that-pays-rent/substack_bundle/manifest.json`
-- metadata (unknown, 0KB) — `/home/allaun/Documents/Research Stack/6-Documentation/articles/meme-math-that-pays-rent/metadata.yml`
 
 ## Maintenance Log
 
 | Date | Action | Detail |
 |------|--------|--------|
-| 2026-05-07 | sources.md generated | 108 covered, 204 uncovered |
+| 2026-05-07 | sources.md generated | 232 covered, 67 uncovered |

6-Documentation/tiddlywiki-local/wiki/tiddlers/Paper Yu 2025 ApJ 995 205.tid

@@ -0,0 +1,18 @@
+created: 20260507000000000
+modified: 20260507000000000
+tags: ResearchStack Article Papers Astrophysics
+title: Paper Yu 2025 ApJ 995 205
+type: text/vnd.tiddlywiki
+
+! Paper Yu 2025 ApJ 995 205
+
+Article from The Astrophysical Journal, 2025, Vol. 995, p. 205 (2063KB PDF).
+Durable Source: `/home/allaun/Documents/ingest/Yu 2025 ApJ 995 205`
+
+[Pending detailed review and compilation.]
+
+!! Links
+
+* [[Research Papers Index]]
+* [[Physics Compression Bridge]]
+* [[Cosmic Structure]]

6-Documentation/tiddlywiki-local/wiki/tiddlers/Paper rsif 2022 0562.tid

@@ -0,0 +1,18 @@
+created: 20260507000000000
+modified: 20260507000000000
+tags: ResearchStack Article Papers Biology Interface
+title: Paper rsif 2022 0562
+type: text/vnd.tiddlywiki
+
+! Paper rsif 2022 0562
+
+Article from Journal of the Royal Society Interface (1258KB PDF).
+Durable Source: `/home/allaun/Documents/ingest/rsif.2022.0562`
+
+[Pending detailed review and compilation.]
+
+!! Links
+
+* [[Research Papers Index]]
+* [[Extremophile Constraint Layer]]
+* [[Biology as PDE Manifold]]

6-Documentation/tiddlywiki-local/wiki/tiddlers/Paper s41378-025-00875-w.tid

@@ -0,0 +1,18 @@
+created: 20260507000000000
+modified: 20260507000000000
+tags: ResearchStack Article Papers MEMS
+title: Paper s41378-025-00875-w
+type: text/vnd.tiddlywiki
+
+! Paper s41378-025-00875-w
+
+Research article from Microsystems & Nanoengineering (2616KB PDF).
+Durable Source: `/home/allaun/Documents/ingest/s41378-025-00875-w`
+
+[Pending detailed review and compilation.]
+
+!! Links
+
+* [[Research Papers Index]]
+* [[Materials and Hardware Mining]]
+* [[Hardware Probing Research Index]]

6-Documentation/tiddlywiki-local/wiki/tiddlers/Q-Fox Primary Development Machine.tid

@@ -0,0 +1,101 @@
+title: Q-Fox (Primary Development Machine)
+tags: infrastructure hardware workstation
+created: 20260507
+modified: 20260507
+
+# Q-Fox — Primary Development Machine
+
+## Overview
+
+| Field | Value |
+|-------|-------|
+| **Hostname** | Q-Fox |
+| **Role** | Primary development, compilation, simulation, and orchestration host |
+| **OS** | CachyOS Linux (Arch-based) |
+| **Kernel** | 7.0.3-1-cachyos |
+| **Architecture** | x86_64 |
+
+---
+
+## CPU
+
+| Field | Value |
+|-------|-------|
+| **Model** | AMD Ryzen 5 9600X (Granite Ridge) |
+| **Cores** | 6 physical / 12 logical (SMT) |
+| **Base Clock** | 628 MHz (min) |
+| **Boost Clock** | 5,486 MHz (max) |
+| **L1d Cache** | 288 KiB (6 × 48 KiB) |
+| **L1i Cache** | 192 KiB (6 × 32 KiB) |
+| **L2 Cache** | 6 MiB (6 × 1 MiB) |
+| **L3 Cache** | 32 MiB (unified) |
+| **ISA Extensions** | AVX-512 (F, DQ, IFMA, CD, BW, VL, BF16, VBMI, VBMI2, VNNI, BITALG, VPOPCNTDQ, VP2INTERSECT), AVX2, AVX-VNNI, SHA-NI, AES |
+| **Virtualization** | AMD-V |
+| **TDP** | 65W (nominal) |
+
+---
+
+## Memory
+
+| Field | Value |
+|-------|-------|
+| **Total** | 31.1 GiB (DDR5) |
+| **Type** | DDR5 (AM5 platform) |
+| **Swap** | 30.4 GiB (zram) |
+
+---
+
+## Storage
+
+| Device | Size | Type | Model |
+|--------|------|------|-------|
+| `/dev/nvme0n1` | 1.8 TB | NVMe PCIe 4.0 | MSI M480 PRO 2TB |
+
+| Partition | Size | Usage |
+|-----------|------|-------|
+| `/dev/nvme0n1p2` (/) | 1.9 TB | 98% used (45G free) |
+
+---
+
+## GPU
+
+| Field | Value |
+|-------|-------|
+| **Model** | AMD Radeon Graphics (Granite Ridge iGPU) |
+| **Architecture** | RDNA 2 (integrated) |
+| **VRAM** | Shared system memory |
+| **PCI ID** | `12:00.0 VGA compatible controller: AMD/ATI Granite Ridge [Radeon Graphics] (rev c6)` |
+
+---
+
+## Networking
+
+| Interface | Type | Address |
+|-----------|------|---------|
+| `enp14s0` | Ethernet (Realtek) | IPv6 only |
+| `wlan0` | WiFi | 192.168.1.118/24 |
+| `tailscale0` | Tailscale VPN | Mesh overlay |
+
+---
+
+## Research Stack Relevance
+
+| Capability | Stack Use |
+|-----------|-----------|
+| AVX-512 (full suite) | Q16.16 fixed-point vectorization, PIST encode/decode, FAMM delay computation |
+| 12 threads | 11-agent swarm + 1 orchestrator thread |
+| 32 MiB L3 cache | Fits full topological device plan in cache-resident state |
+| 31 GiB RAM | Virtual FPGA cluster (5× Tang Nano 9K) fits in memory |
+| NVMe 4.0 | Fast Lean 4 lake builds, Verilator simulation traces |
+| AVX-512 BF16 | bf4prover bfloat16 proof search acceleration |
+| SHA-NI / AES | Receipt hashing, invariant witness compression |
+| AMD-V | Nested virtualization for sandboxed prover execution |
+
+---
+
+## Notes
+
+- 98% disk usage — cleanup recommended before large builds
+- No discrete GPU — all compute on CPU (sufficient for current stack)
+- CachyOS provides optimized kernel with BORE scheduler and LTO builds
+- zram swap at 30.4 GiB matches physical RAM (1:1 ratio)

6-Documentation/tiddlywiki-local/wiki/tiddlers/Research Papers Index.tid

@@ -0,0 +1,30 @@
+created: 20260507000000000
+modified: 20260507000000000
+tags: ResearchStack Article Research Papers
+title: Research Papers Index
+type: text/vnd.tiddlywiki
+
+! Research Papers Index
+
+Research papers and articles referenced in or relevant to the Research Stack,
+found in `/home/allaun/Documents/ingest/` and `/home/allaun/Documents/Research Stack/shared-data/data/germane/research/`.
+
+!! Ingested Papers
+
+* [[Paper s41378-025-00875-w]] — Microsystems & Nanoengineering article (2616KB)
+* [[Paper Yu 2025 ApJ 995 205]] — Astrophysical Journal article (2063KB)
+* [[Paper rsif 2022 0562]] — J. R. Soc. Interface article (1258KB)
+* [[Malicious AI Swarms Democracy]] — AI swarm safety paper (248KB PDF)
+* [[Abelian Sandpile Model Article]] — [[Hybrid Abelian Non-Abelian Sandpile]] reference
+
+!! Durable Sources
+
+* `/home/allaun/Documents/ingest/s41378-025-00875-w`
+* `/home/allaun/Documents/ingest/Yu 2025 ApJ 995 205`
+* `/home/allaun/Documents/ingest/rsif.2022.0562`
+
+!! Maintenance Log
+
+| Date | Action |
+|------|--------|
+| 2026-05-07 | Index created from `wiki_builder_shim` scan |

6-Documentation/tiddlywiki-local/wiki/wbs_skip.txt

@@ -36,3 +36,17 @@ InvariantSurfaceConstitution_v2.md
 walkthrough_4_13_2026.md
 chatgpt_conversation.md
 freakingpaste.md
+manifest 20260318T231339Z
+manifest 20260318T231057Z
+SovereignMathModel test vectors
+behavioral taxonomy merkle
+Tasks
+The Ending
+Articles
+build manifest
+attestestion file
+manifest
+
+# Large PDFs / textbooks (not research papers)
+HY_World_2_0.pdf
+Agentic_Design_Patterns.pdf