Further changes have come in with version 1.20.2.3402
Release Notice
- (DVR) Server would not display user selected commercial skip setting for scheduled recording (#11921).
See if this resolves the issue, if not, please run with debug logging and download the Plex Media Server logs after completion of recording and post processing and indicate what the option was for the recording and which recording it was
see
https://support.plex.tv/articles/201643703-reporting-issues-with-plex-media-server/
https://support.plex.tv/articles/200250417-plex-media-server-log-files/