refactor(restructure): rewrite all imports for hermes_agent package

Rewrite all import statements, patch() targets, sys.modules keys,
importlib.import_module() strings, and subprocess -m references to use
hermes_agent.* paths.

Strip sys.path.insert hacks from production code (rely on editable install).
Update COMPONENT_PREFIXES for logger filtering.
Fix 3 hardcoded getLogger() calls to use __name__.
Update transport and tool registry discovery paths.
Update plugin module path strings.
Add legacy process-name patterns for gateway PID detection.
Add main() to skills_sync for console_script entry point.
Fix _get_bundled_dir() path traversal after move.

Part of #14182, #14183

tests/plugins/test_retaindb_plugin.py

@@ -42,7 +42,7 @@ def _cap_retaindb_sleeps(monkeypatch):
     own ``time.sleep`` stays real since it uses a different reference.
     """
     try:
-        from plugins.memory import retaindb as _retaindb
+        from hermes_agent.plugins.memory import retaindb as _retaindb
     except ImportError:
         return
 
@@ -60,9 +60,7 @@ def _cap_retaindb_sleeps(monkeypatch):
 import sys
 _repo_root = str(Path(__file__).resolve().parents[2])
 if _repo_root not in sys.path:
-    sys.path.insert(0, _repo_root)
-
-from plugins.memory.retaindb import (
+from hermes_agent.plugins.memory.retaindb import (
     _Client,
     _WriteQueue,
     _build_overlay,
@@ -735,7 +733,7 @@ class TestOnMemoryWrite:
 
 class TestRegister:
     def test_register_calls_register_memory_provider(self):
-        from plugins.memory.retaindb import register
+        from hermes_agent.plugins.memory.retaindb import register
         ctx = MagicMock()
         register(ctx)
         ctx.register_memory_provider.assert_called_once()