fix: add missing deleted_at columns to all plugin tables, fix system-settings response schema, fix transaction rollback in permissions

app/core/permissions.py

@@ -105,9 +105,17 @@ async def resolve_permissions(
         }
     """
     # Check system admin first
-    user_q = select(User.is_system_admin).where(User.id == user_id)
-    user_result = await db.execute(user_q)
-    is_system_admin = user_result.scalar() or False
+    # If a previous query in this session failed, the transaction may be aborted.
+    # Rollback to recover before executing our query.
+    try:
+        user_q = select(User.is_system_admin).where(User.id == user_id)
+        user_result = await db.execute(user_q)
+        is_system_admin = user_result.scalar() or False
+    except Exception:
+        await db.rollback()
+        user_q = select(User.is_system_admin).where(User.id == user_id)
+        user_result = await db.execute(user_q)
+        is_system_admin = user_result.scalar() or False
 
     if is_system_admin:
         return {