chore: Remove runtime artifacts from git tracking

This commit removes the following directories from git tracking (not from disk):
- .agent/ - AI tool configs
- .agents/ - Agent skills
- .augment/ - Augment AI
- .beads/ - Runtime database
- .claude/ - Claude AI configs
- .cline/ - Cline AI configs
- .openhands/ - OpenHands AI
- .dolt/ - Dolt database

These are now properly gitignored and will not appear in the repository.
This is a MASSIVE cleanup removing 1500+ files from version control.

.beads/templates/refactor.json

@@ -1,16 +0,0 @@
-{
-  "id": "refactor",
-  "name": "Refactoring Team",
-  "description": "Team for improving existing code without changing behavior. Architect plans changes, Engineer implements, Tester ensures nothing breaks.",
-  "team": [
-    { "archetypeId": "architect", "count": 1 },
-    { "archetypeId": "engineer", "count": 2 },
-    { "archetypeId": "tester", "count": 1 }
-  ],
-  "protoFormula": "Architect identifies improvement areas and creates plan → Engineer implements refactoring → Tester verifies behavior unchanged",
-  "color": "#64748b",
-  "icon": "🔧",
-  "createdAt": "2026-02-25T00:00:00.000Z",
-  "updatedAt": "2026-02-25T00:00:00.000Z",
-  "isBuiltIn": true
-}