diff --git a/lib/galaxy/tool_util/toolbox/base.py b/lib/galaxy/tool_util/toolbox/base.py
index f70d2978b4f2..dec573f9b922 100644
--- a/lib/galaxy/tool_util/toolbox/base.py
+++ b/lib/galaxy/tool_util/toolbox/base.py
@@ -898,6 +898,8 @@ def _load_tool_tag_set(
         except OSError as exc:
             exc_info = exc.errno != ENOENT
             log.error("Error reading tool configuration file from path '%s': %s", path, exc, exc_info=exc_info)
+        except AssertionError as exc:
+            log.warning("Error reading tool configuration file from path '%s': %s", path, exc)
         except Exception:
             log.exception("Error reading tool from path: %s", path)