fix: projects/ directory should be gitignored — it is local installation config, not shared code (#561)

- Add projects/*.toml to .gitignore
- Remove existing TOML files from git tracking (git rm --cached)
- Add .toml.example templates with placeholder values
- Update BOOTSTRAP.md with new section on project TOML setup
- Update AGENTS.md directory layout description

Existing local installations are unaffected — gitignore only
prevents tracked files from being committed, local copies persist.

Co-Authored-By: Claude Opus 4.6 (1M context) <noreply@anthropic.com>

AGENTS.md

@@ -27,7 +27,7 @@ disinto/
 ├── vault/         vault-poll.sh, vault-agent.sh, vault-fire.sh — action gating + procurement
 ├── action/        action-poll.sh, action-agent.sh — operational task execution
 ├── lib/           env.sh, agent-session.sh, ci-helpers.sh, ci-debug.sh, load-project.sh, parse-deps.sh, matrix_listener.sh
-├── projects/      *.toml — per-project config
+├── projects/      *.toml.example — templates; *.toml — local per-box config (gitignored)
 ├── formulas/      Issue templates (TOML specs for multi-step agent tasks)
 └── docs/          Protocol docs (PHASE-PROTOCOL.md, EVIDENCE-ARCHITECTURE.md)
 ```