fix(project-bootstrap): align wiki init with Karpathy canon

Bootstrap was creating .wiki/SUMMARY.md + WORKFLOW.md + source/ — none of
which match Karpathy's LLM Wiki pattern or what wiki-maintainer reads first.
The skill had to bend around an invented layout (no schema file, wrong
catalog name, missing log/overview/entities/concepts/packages).

Rewrote Step 3 to create the canonical layout verbatim:
  .wiki/CLAUDE.md          schema (project-specific conventions)
  .wiki/index.md           catalog
  .wiki/log.md             append-only op log
  .wiki/overview.md        project overview
  .wiki/raw/README.md      immutability note
  .wiki/{entities,concepts,packages,sources}/.gitkeep

Pinned the gist URL inside the schema:
  https://gist.github.com/karpathy/442a6bf555914893e9891c11519de94f

Bumped dist/project-bootstrap.skill, recorded the why in
.wiki/source/wiki-realignment.md, and queued migration of *this* repo's own
.wiki/ (still on the old layout) as a backlog task — to be done deliberately.

Co-Authored-By: Claude Opus 4.7 (1M context) <noreply@anthropic.com>

skills/project-bootstrap/SKILL.md

@@ -77,49 +77,134 @@ If it exists — leave it untouched.
 
 If `.wiki/` already exists — skip it, notify the user.
 
-If it does not exist — create the structure:
+If it does not exist — create the **canonical Karpathy LLM-Wiki layout** (gist:
+https://gist.github.com/karpathy/442a6bf555914893e9891c11519de94f). The
+`wiki-maintainer` skill expects exactly this shape; do not invent your own
+names.
 
 ```
 .wiki/
-  raw/          ← raw inputs: transcripts, docs, links — anything not yet processed
-  source/       ← compiled knowledge: wiki pages maintained by the agent
-  SUMMARY.md    ← table of contents: all source/ pages with one-line descriptions
-  WORKFLOW.md   ← how to work with the wiki: when to read, when to update
+  CLAUDE.md          ← schema: project-specific wiki conventions
+  index.md           ← catalog of all pages (by type), updated on every ingest
+  log.md             ← append-only op log: ## [YYYY-MM-DD] op | desc
+  overview.md        ← single human-readable project overview
+  raw/
+    README.md        ← raw/ is immutable; this file documents that
+  entities/          ← entity pages (people, services, modules) — empty .gitkeep
+  concepts/          ← concept / design decision pages — empty .gitkeep
+  packages/          ← package pages — empty .gitkeep
+  sources/           ← one summary per ingested source — empty .gitkeep
 ```
 
-Contents of `WORKFLOW.md`:
+Page-level workflow (ingest, query, lint) and file formats are owned by the
+`wiki-maintainer` skill. Bootstrap only lays the skeleton; the skill takes
+over from there.
+
+### `.wiki/CLAUDE.md` (schema)
 
 ```markdown
-# Wiki Workflow
+# Wiki Schema — <project name>
 
-This wiki follows Karpathy's method: knowledge accumulates rather than being re-derived.
+Project-specific wiki conventions. Read this before any wiki operation.
 
-## Rules for the agent
+This wiki follows Karpathy's LLM Wiki pattern:
+**https://gist.github.com/karpathy/442a6bf555914893e9891c11519de94f**
 
-- **Before starting work** — read relevant pages from source/
-- **After an important decision** — update or create a page in source/
-- **New raw materials** (links, docs, transcripts) — put in raw/
-- **Processed knowledge** — write as markdown pages in source/
-- **SUMMARY.md** — update whenever a page is added to source/
+The `wiki-maintainer` skill enforces the workflow and file formats. This
+file overrides the skill where they conflict.
 
-## Trigger
+## Page types
 
-Skill is activated by the phrase: **use project wiki**
+- `entities/` — discrete things the project tracks (people, services, modules).
+- `concepts/` — recurring ideas, design decisions, gotchas.
+- `packages/` — code packages this project produces or consumes.
+- `sources/` — one summary page per ingested external doc; frontmatter carries `ingested:` and `raw_path:`.
+- `overview.md` — single project-wide overview.
+
+## Naming
+
+- `kebab-case.md`, **Latin only**. Transliterate Cyrillic in filenames; keep the original title in the H1 + frontmatter.
+
+## Domain conventions
+
+<!-- Fill in as the project takes shape — what counts as an entity here, which packages exist, naming idioms specific to this codebase. -->
 ```
 
-Contents of `SUMMARY.md`:
+### `.wiki/index.md`
 
 ```markdown
-# Wiki Summary
+# Wiki Index
 
-List of all pages in source/ with one-line descriptions.
-The agent updates this file whenever source/ changes.
+Catalog of all wiki pages. One line per page, organized by type. The agent updates this on every ingest.
 
-## Pages
+## Overview
 
-<!-- Empty for now. Pages will appear as the project progresses. -->
+- [overview.md](overview.md) — project overview
+
+## Entities
+
+<!-- (none yet) -->
+
+## Concepts
+
+<!-- (none yet) -->
+
+## Packages
+
+<!-- (none yet) -->
+
+## Sources
+
+<!-- (none yet) -->
 ```
 
+### `.wiki/log.md`
+
+```markdown
+# Wiki Log
+
+Append-only operation log. One entry per operation. Format:
+
+\`\`\`
+## [YYYY-MM-DD] <op> | <one-line description>
+\`\`\`
+
+Operations: `init`, `ingest`, `query`, `lint`, `refactor`, `decision`.
+
+Parseable: `grep "^## \[" .wiki/log.md | tail -20`.
+
+---
+
+## [<today's date>] init | bootstrap empty wiki via project-bootstrap
+```
+
+### `.wiki/overview.md`
+
+```markdown
+# <project name> — overview
+
+<!-- Replace with a high-level description: what this project does, who it's for, the main components. -->
+```
+
+### `.wiki/raw/README.md`
+
+```markdown
+# Raw Sources
+
+**Immutable.** Read, never edit. The only allowed modification is appending a `> Status:` blockquote when the user explicitly asks for a status audit.
+
+Place raw inputs here — articles, transcripts, PDFs, screenshots — exactly as they came in. The agent reads from `raw/`, writes summaries into `../sources/`, and never modifies raw files.
+
+For large or path-sensitive sources that live outside the repo, register them here:
+
+\`\`\`
+- short-name → /absolute/path/to/source
+\`\`\`
+```
+
+The empty subdirectories (`entities/`, `concepts/`, `packages/`, `sources/`)
+each get a `.gitkeep` so git tracks them.
+
 ---
 
 ## Step 4 — .tasks/