docs: add worklog for skills directory standardization

docs/worklogs/2026-01-14-skills-directory-structure-standardization.md

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+---
+title: "Standardization of Skills Directory Structure"
+date: 2026-01-14
+keywords: [skills, refactor, standardization, codex, directory-structure, assets, references]
+commits: 1
+compression_status: uncompressed
+---
+
+# Session Summary
+
+**Date:** 2026-01-14
+**Focus Area:** Skills Repository Architecture and Standardization
+
+# Accomplishments
+
+- [x] Standardized skills directory structure to match Codex conventions
+- [x] Renamed `templates/` directories to `assets/` in `worklog`, `template`, `review-gate`, and `hq` skills
+- [x] Removed redundant `skills/` subdirectories from individual skill folders (e.g., `skills/worklog/skills`)
+- [x] Moved loose documentation files to `references/` directories in `niri-window-capture` and `spec-review`
+- [x] Updated all `SKILL.md` and `README.md` files to reference the new paths
+- [x] Verified no broken references remained in the codebase
+- [x] Closed issue `skills-zxek`
+
+# Key Decisions
+
+## Decision 1: Adopt `assets/` and `references/` convention
+
+- **Context:** The skills repo had inconsistent naming (`templates/` vs `assets/`) and loose documentation files cluttering skill roots.
+- **Options considered:**
+  1. Keep as is (mix of styles) - confusing for agents and users.
+  2. Adopt Codex standard (`assets/`, `references/`) - consistent, future-proof.
+- **Rationale:** Codex uses `assets/` for templates and static files, and `references/` for context. Aligning with this standard ensures compatibility and reduces cognitive load for both human and AI agents.
+- **Impact:** Cleaner directory structure, clearer file organization, better compatibility with Codex tools.
+
+## Decision 2: Remove redundant `skills/` subdirectories
+
+- **Context:** Many skills contained a nested `skills/` directory (e.g., `skills/worklog/skills/worklog.md`).
+- **Rationale:** These were likely artifacts of previous build processes or redundant copies. They added noise and confusion.
+- **Impact:** Reduced file count, removed potential for stale duplicate files.
+
+# Problems & Solutions
+
+| Problem | Solution | Learning |
+|---------|----------|----------|
+| `grep` failing on binary files | Used `grep -I` or ignored binary files explicitly | Use specific flags to avoid grep errors on binaries |
+| Updating multiple file references | Used `replace` tool iteratively | Systematic search-and-replace is safer than bulk regex |
+
+# Technical Details
+
+## Code Changes
+
+- Total files modified: ~39
+- Key changes:
+  - `skills/worklog/templates/` -> `skills/worklog/assets/`
+  - `skills/hq/templates/` -> `skills/hq/assets/`
+  - `skills/review-gate/templates/` -> `skills/review-gate/assets/`
+  - Moved `skills/niri-window-capture/*.md` -> `skills/niri-window-capture/references/`
+  - Moved `skills/spec-review/*.md` -> `skills/spec-review/references/`
+
+## Commands Used
+
+```bash
+# Rename templates to assets
+[ -d skills/worklog/templates ] && mv skills/worklog/templates skills/worklog/assets
+
+# Find references to update
+grep -r "templates/" skills/ | grep -v "node_modules"
+
+# Remove redundant subdirectories
+rm -rf skills/*/skills
+```
+
+# Context for Future Work
+
+## Next Steps
+
+- Monitor for any broken links that might have been missed (though search was thorough).
+- Encourage future skill creators to follow the `assets/` and `references/` pattern.
+
+# Session Metrics
+
+- Commits made: 1
+- Files touched: 39
+- Lines added/removed: +294/-2978 (large removal due to deleting redundant files)