Jellyfin - "ghost" episodes after update

[HarmlesssPotato]

After updating the Jellyfin application through the HexOS interface to v10.11.5, the drive access permissions were reset to default and my custom directories were removed. I re-added the pools back into the apps permissions through TrueNAS, but it did not match exactly to what I used initially (Drive/Media/Shows vs. Drive/Shows). This created duplicate entries for all of my episodes, one version pointing to the newly added directory that plays fine, and another pointing to the old directory that is no longer available to Jellyfin and the files throw an error when you try to watch them. The log has an FFMPEG error saying the directory doesn't exist. I tried a number of troubleshooting steps including refreshing the metadata with direction to replace all existing metadata and I tried deleting the library completely and rebuilding it with the corrected directories then refreshed metadata again. Neither step fixed the issue.

Then I went back into TrueNAS and reset the directory access to match my original setup, deleted the existing library in Jellyfin and rebuilt it, and refreshed the metadata. The original episode entries in Jellyfin are working again, but now I have duplicate episodes for the updated directory that no longer exists. Now I just need to delete those new "ghost" episodes.

I tried deleting a "ghost" episode with the ellipsis next to the episode and through the metadata manager, but Jellyfin throws an error saying it doesn't have access to that file location.

 

I am out of ideas and am not finding any help elsewhere online. Does anyone have any ideas for how I can clean this up?

[HarmlesssPotato]

2 hours ago, HarmlesssPotato said:

After updating the Jellyfin application through the HexOS interface to v10.11.5, the drive access permissions were reset to default and my custom directories were removed. I re-added the pools back into the apps permissions through TrueNAS, but it did not match exactly to what I used initially (Drive/Media/Shows vs. Drive/Shows). This created duplicate entries for all of my episodes, one version pointing to the newly added directory that plays fine, and another pointing to the old directory that is no longer available to Jellyfin and the files throw an error when you try to watch them. The log has an FFMPEG error saying the directory doesn't exist. I tried a number of troubleshooting steps including refreshing the metadata with direction to replace all existing metadata and I tried deleting the library completely and rebuilding it with the corrected directories then refreshed metadata again. Neither step fixed the issue.

Then I went back into TrueNAS and reset the directory access to match my original setup, deleted the existing library in Jellyfin and rebuilt it, and refreshed the metadata. The original episode entries in Jellyfin are working again, but now I have duplicate episodes for the updated directory that no longer exists. Now I just need to delete those new "ghost" episodes.

I tried deleting a "ghost" episode with the ellipsis next to the episode and through the metadata manager, but Jellyfin throws an error saying it doesn't have access to that file location.

 

I am out of ideas and am not finding any help elsewhere online. Does anyone have any ideas for how I can clean this up?

Update: It resolved itself. After a few scans it eventually cleared out the duplicate episodes.