feat: Major directory reorganization and cleanup

Reorganized project structure for better maintainability and reduced
disk usage by 95.9% (11 GB -> 451 MB).

Directory Reorganization (85% reduction in root files):
- Created docs/ with subdirectories (deployment, testing, database, etc.)
- Created infrastructure/vpn-configs/ for VPN scripts
- Moved 90+ files from root to organized locations
- Archived obsolete documentation (context system, offline mode, zombie debugging)
- Moved all test files to tests/ directory
- Root directory: 119 files -> 18 files

Disk Cleanup (10.55 GB recovered):
- Deleted Rust build artifacts: 9.6 GB (target/ directories)
- Deleted Python virtual environments: 161 MB (venv/ directories)
- Deleted Python cache: 50 KB (__pycache__/)

New Structure:
- docs/ - All documentation organized by category
- docs/archives/ - Obsolete but preserved documentation
- infrastructure/ - VPN configs and SSH setup
- tests/ - All test files consolidated
- logs/ - Ready for future logs

Benefits:
- Cleaner root directory (18 vs 119 files)
- Logical organization of documentation
- 95.9% disk space reduction
- Faster navigation and discovery
- Better portability (build artifacts excluded)

Build artifacts can be regenerated:
- Rust: cargo build --release (5-15 min per project)
- Python: pip install -r requirements.txt (2-3 min)

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

tests/test_db_connection.py

@@ -0,0 +1,99 @@
+#!/usr/bin/env python3
+"""Test MariaDB connectivity from Windows"""
+import pymysql
+
+# Connection details
+HOST = '172.16.3.20'
+PORT = 3306
+ROOT_PASSWORD = r'Dy8RPj-s{+=bP^(NoW"T;E~JXyBC9u|<'
+CLAUDETOOLS_PASSWORD = 'CT_e8fcd5a3952030a79ed6debae6c954ed'
+
+print("Testing MariaDB connection to Jupiter (172.16.3.20)...\n")
+
+# Test 1: Root connection
+try:
+    print("Test 1: Connecting as root...")
+    conn = pymysql.connect(
+        host=HOST,
+        port=PORT,
+        user='root',
+        password=ROOT_PASSWORD,
+        connect_timeout=10
+    )
+    print("[OK] Root connection successful!")
+
+    cursor = conn.cursor()
+    cursor.execute("SELECT VERSION()")
+    version = cursor.fetchone()
+    print(f"   MariaDB Version: {version[0]}")
+
+    cursor.execute("SHOW DATABASES")
+    databases = cursor.fetchall()
+    print(f"   Databases found: {len(databases)}")
+    for db in databases:
+        print(f"      - {db[0]}")
+
+    # Check if claudetools database exists
+    cursor.execute("SELECT SCHEMA_NAME FROM information_schema.SCHEMATA WHERE SCHEMA_NAME = 'claudetools'")
+    claudetools_db = cursor.fetchone()
+    if claudetools_db:
+        print("\n[OK] 'claudetools' database exists!")
+    else:
+        print("\n[WARNING] 'claudetools' database does NOT exist yet")
+
+    # Check if claudetools user exists
+    cursor.execute("SELECT User FROM mysql.user WHERE User = 'claudetools'")
+    claudetools_user = cursor.fetchone()
+    if claudetools_user:
+        print("[OK] 'claudetools' user exists!")
+    else:
+        print("[WARNING] 'claudetools' user does NOT exist yet")
+
+    conn.close()
+    print("\nTest 1 PASSED [OK]\n")
+
+except Exception as e:
+    print(f"[FAILED] Test 1: {e}\n")
+
+# Test 2: Claudetools user connection (if exists)
+try:
+    print("Test 2: Connecting as 'claudetools' user...")
+    conn = pymysql.connect(
+        host=HOST,
+        port=PORT,
+        user='claudetools',
+        password=CLAUDETOOLS_PASSWORD,
+        database='claudetools',
+        connect_timeout=10
+    )
+    print("[OK] Claudetools user connection successful!")
+
+    cursor = conn.cursor()
+    cursor.execute("SELECT DATABASE()")
+    current_db = cursor.fetchone()
+    print(f"   Current database: {current_db[0]}")
+
+    cursor.execute("SHOW TABLES")
+    tables = cursor.fetchall()
+    print(f"   Tables in claudetools: {len(tables)}")
+
+    conn.close()
+    print("\nTest 2 PASSED [OK]\n")
+
+except pymysql.err.OperationalError as e:
+    if "Access denied" in str(e):
+        print("[WARNING] Claudetools user doesn't exist or wrong password")
+    elif "Unknown database" in str(e):
+        print("[WARNING] Claudetools database doesn't exist yet")
+    else:
+        print(f"[WARNING] Test 2: {e}")
+    print("   (This is expected if database/user haven't been created yet)\n")
+except Exception as e:
+    print(f"[WARNING] Test 2: {e}\n")
+
+print("\n" + "="*60)
+print("CONNECTION TEST SUMMARY")
+print("="*60)
+print("[OK] MariaDB is accessible from Windows on port 3306")
+print("[OK] Root authentication works")
+print("\nNext step: Create 'claudetools' database and user if they don't exist")