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Plan vault restructuring from config changes. Compares config.yaml against derivation.md, identifies dimension shifts, shows restructuring plan, executes on approval. Triggers on "/refactor", "restructure vault".

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Contextual guidance and command discovery. Three modes — narrative (first-time), contextual (mid-task), compact (quick reference). Shows available commands, active skills, and intelligent suggestions based on vault state. Triggers on "/help", "what can I do", "show commands", "how does this work".

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Challenge system assumptions against accumulated evidence. Triages observations and tensions, detects patterns, generates proposals. The scientific method applied to knowledge systems. Triggers on "/rethink", "review observations", "challenge assumptions", "what have I learned".

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Add a source file to the processing queue. Checks for duplicates, creates archive folder, moves source from inbox, creates extract task, and updates queue. Triggers on "/seed", "/seed [file]", "queue this for processing".

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Run condition-based vault health diagnostics. 8 categories — schema compliance, orphan detection, link health, description quality, three-space boundaries, processing throughput, stale notes, MOC coherence. 3 modes — quick (schema+orphans+links), full (all 8), three-space (boundary violations only). Returns actionable FAIL/WARN/PASS report with specific fixes ranked by impact. Triggers on "/health", "check vault health", "maintenance report", "what needs fixing".

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Research-backed evolution advice for your knowledge system. Analyzes health reports, friction patterns, and derivation history to propose specific changes with research justification. Never auto-implements — proposals require your approval.

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End-to-end source processing -- seed, reduce, process all claims through reflect/reweave/verify, archive. The full pipeline in one command. Triggers on "/pipeline", "/pipeline [file]", "process this end to end", "full pipeline".

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Extract structured knowledge from source material. Comprehensive extraction is the default — every insight that serves the domain gets extracted. For domain-relevant sources, skip rate must be below 10%. Zero extraction from a domain-relevant source is a BUG. Triggers on "/reduce", "/reduce [file]", "extract insights", "mine this", "process this".

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Apply plugin knowledge base updates to an existing generated system. Consults the Ars Contexta research graph for methodology improvements, proposes skill upgrades with research justification. Never auto-implements. Triggers on "/upgrade", "upgrade skills", "check for improvements", "update methodology".

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Interactive knowledge graph analysis. Routes natural language questions to graph scripts, interprets results in domain vocabulary, and suggests concrete actions. Triggers on "/graph", "/graph health", "/graph triangles", "find synthesis opportunities", "graph analysis".

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Research a topic and grow your knowledge graph. Uses Exa deep researcher, web search, or basic search to investigate topics, files results with full provenance, and chains to processing pipeline. Triggers on "/learn", "/learn [topic]", "research this", "find out about".

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Surface the most valuable next action by combining task stack, queue state, inbox pressure, health, and goals. Recommends one specific action with rationale. Triggers on "/next", "what should I do", "what's next".

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Queue processing with fresh context per phase. Processes N tasks from the queue, spawning isolated subagents to prevent context contamination. Supports serial, parallel, batch filter, and dry run modes. Triggers on "/ralph", "/ralph N", "process queue", "run pipeline tasks".

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Find connections between notes and update MOCs. Requires semantic judgment to identify genuine relationships. Use after /reduce creates notes, when exploring connections, or when a topic needs synthesis. Triggers on "/reflect", "/reflect [note]", "find connections", "update MOCs", "connect these notes".

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Capture friction as methodology notes. Three modes — explicit description, contextual (review recent corrections), session mining (scan transcripts for patterns). Triggers on "/remember", "/remember [description]".

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View and manage the task stack and processing queue. Shows pending work, active tasks, completed items, and queue state. Triggers on "/tasks", "show tasks", "what's pending", "task list", "queue status".

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Schema validation for notes. Checks against domain-specific templates. Validates required fields, enum values, description quality, and link health. Non-blocking — warns but doesn't prevent capture. Triggers on "/validate", "/validate [note]", "check schema", "validate note", "validate all".

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Update old notes with new connections. The backward pass that /reflect doesn't do. Revisit existing notes that predate newer related content, add connections, sharpen claims, consider splits. Triggers on "/reweave", "/reweave [note]", "update old notes", "backward connections", "revisit notes".

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Add a new knowledge domain to your existing system. Derives domain-specific configuration through conversation, generates domain folders, templates, and vocabulary while preserving and connecting to your existing architecture.

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Query the bundled research knowledge graph for methodology guidance. Routes questions through a 3-tier knowledge base — WHY (research claims), HOW (guidance docs), WHAT IT LOOKS LIKE (domain examples) — plus structured reference documents. Returns research-backed answers grounded in specific claims with practical application to the user's system. Triggers on "/ask", "/ask [question]", "why does my system...", "how should I...".

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Get research-backed architecture advice for your knowledge system. Describe your use case, constraints, and goals — get specific recommendations grounded in TFT research with rationale for each decision. Triggers on "/recommend", "what would you recommend", "architecture advice", "knowledge system for".

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Re-derive your knowledge system from first principles when structural drift accumulates. Analyzes dimension incoherence, vocabulary mismatch, boundary dissolution, and template divergence. Preserves all content while restructuring architecture.

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Scaffold a complete knowledge system. Detects platform, conducts conversation, derives configuration, generates everything. Validates against 15 kernel primitives. Triggers on "/setup", "/setup --advanced", "set up my knowledge system", "create my vault".

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Interactive walkthrough for new users. Learn by doing — each step creates real content in your vault. Three tracks (researcher, manager, personal) with a universal learning arc. Triggers on "/tutorial", "walk me through", "how do I use this".

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