Customers are reporting that the package metadata can end up referencing to non-existing assets or other assets. This causing validation errors in the editor and also generates warnings during the DDC commandlet. The customers could not provide a way to reproduce the problem but Claude was able to find the current reproduction steps. There might be more ways to generate bad references in the Metadata.
The current analysis is that it is caused by the ObjectMetaDataMap key using soft references. They are remapped by the core redirects when saving (FSoftObjectPath::PreSavePath).
There's no existing public thread on this issue, so head over to Questions & Answers just mention UE-401315 in the post.