Replace SQLite with JSON file storage

- Remove database.py (SQLite) from tools/storage/ and dss-mvp1/
- Add json_store.py with full JSON-based storage layer
- Update 16 files to use new json_store imports
- Storage now mirrors DSS canonical structure:
  .dss/data/
  ├── _system/    (config, cache, activity)
  ├── projects/   (per-project: tokens, components, styles)
  └── teams/      (team definitions)
- Remove Docker files (not needed)
- Update DSS_CORE.json to v1.1.0

Philosophy: "Eat our own food" - storage structure matches DSS design

🤖 Generated with [Claude Code](https://claude.com/claude-code)

Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>

tools/api/mcp_server.py

@@ -39,7 +39,7 @@ sys.path.insert(0, str(Path(__file__).parent.parent))
 
 from mcp.server.fastmcp import FastMCP
 from config import config
-from storage.database import Projects, Components, SyncHistory, ActivityLog, get_stats
+from storage.json_store import Projects, Components, SyncHistory, ActivityLog, get_stats
 from figma.figma_tools import FigmaToolSuite
 
 # Import new ingestion modules

tools/api/server.py

@@ -64,10 +64,9 @@ from browser_logger import router as browser_log_router
 
 # Legacy imports (will gradually migrate these)
 from config import config
-from storage.database import (
+from storage.json_store import (
     Projects, Components, SyncHistory, ActivityLog, Teams, Cache, get_stats,
-    FigmaFiles, ESREDefinitions, TokenDriftDetector, CodeMetrics, TestResults,
-    get_connection
+    FigmaFiles, CodeMetrics, TestResults, TokenDrift, Tokens, Styles
 )
 from figma.figma_tools import FigmaToolSuite
 
@@ -405,16 +404,15 @@ async def health():
     import psutil
     from pathlib import Path
 
-    # ❤️ Check Heart (database) connectivity
+    # ❤️ Check Heart (storage) connectivity
     db_ok = False
     try:
-        with get_connection() as conn:
-            conn.execute("SELECT 1").fetchone()
-            db_ok = True
+        from storage.json_store import DATA_DIR
+        db_ok = DATA_DIR.exists()
     except Exception as e:
         import traceback
         error_trace = traceback.format_exc()
-        print(f"🏥 VITAL SIGN: Heart (database) error: {type(e).__name__}: {e}", flush=True)
+        print(f"🏥 VITAL SIGN: Heart (storage) error: {type(e).__name__}: {e}", flush=True)
         print(f"   Traceback:\n{error_trace}", flush=True)
         pass
 

tools/auth/atlassian_auth.py

@@ -12,7 +12,7 @@ from datetime import datetime, timedelta
 from typing import Optional, Dict, Any
 from atlassian import Jira, Confluence
 
-from storage.database import get_connection
+from storage.json_store import read_json, write_json, SYSTEM_DIR
 
 
 class AtlassianAuth:

tools/dss_mcp/audit.py

@@ -11,7 +11,7 @@ from typing import Optional, Dict, Any
 from datetime import datetime
 from enum import Enum
 
-from storage.database import get_connection  # Use absolute import (tools/ is in sys.path)
+from storage.json_store import ActivityLog, append_jsonl, read_jsonl, SYSTEM_DIR  # JSON storage
 
 
 class AuditEventType(Enum):

tools/dss_mcp/context/project_context.py

@@ -17,7 +17,7 @@ from pathlib import Path
 import sys
 sys.path.insert(0, str(Path(__file__).parent.parent.parent))
 
-from storage.database import get_connection, Projects
+from storage.json_store import Projects, Components, Tokens
 from analyze.scanner import ProjectScanner
 from ..config import mcp_config
 

tools/dss_mcp/handler.py

@@ -22,7 +22,7 @@ from pathlib import Path
 # Note: sys.path is set up by the importing module (server.py)
 # Do NOT modify sys.path here as it causes relative import issues
 
-from storage.database import get_connection
+from storage.json_store import Projects, ActivityLog
 from .config import mcp_config, integration_config
 from .context.project_context import get_context_manager, ProjectContext
 from .tools.project_tools import PROJECT_TOOLS, ProjectTools

tools/dss_mcp/integrations/base.py

@@ -12,7 +12,7 @@ from datetime import datetime, timedelta
 from enum import Enum
 
 from ..config import mcp_config
-from storage.database import get_connection
+from storage.json_store import Cache, read_json, write_json, SYSTEM_DIR
 
 
 class CircuitState(Enum):

tools/dss_mcp/operations.py

@@ -13,7 +13,7 @@ from datetime import datetime
 from enum import Enum
 
 from .config import mcp_config
-from storage.database import get_connection  # Use absolute import (tools/ is in sys.path)
+from storage.json_store import ActivityLog, read_json, write_json, DATA_DIR  # JSON storage
 
 
 class OperationStatus(Enum):

tools/dss_mcp/security.py

@@ -16,7 +16,7 @@ from cryptography.hazmat.primitives.kdf.pbkdf2 import PBKDF2HMAC
 from cryptography.hazmat.backends import default_backend
 
 from .config import mcp_config
-from storage.database import get_connection  # Use absolute import (tools/ is in sys.path)
+from storage.json_store import read_json, write_json, SYSTEM_DIR  # JSON storage
 
 
 class CredentialVault:

tools/dss_mcp/tools/project_tools.py

@@ -20,7 +20,7 @@ from mcp import types
 from ..context.project_context import get_context_manager
 from ..security import CredentialVault
 from ..audit import AuditLog, AuditEventType
-from storage.database import get_connection  # Use absolute import (tools/ is in sys.path)
+from storage.json_store import Projects, Components, Tokens, ActivityLog  # JSON storage
 
 
 # Tool definitions (metadata for Claude)

tools/figma/figma_tools.py

@@ -38,7 +38,7 @@ import httpx
 sys.path.insert(0, str(Path(__file__).parent.parent))
 
 from config import config
-from storage.database import Cache, ActivityLog
+from storage.json_store import Cache, ActivityLog
 
 @dataclass
 class DesignToken: