As previously asked for without having normal debug server logs (verbose disabled) and a plex dance of your issue we are unable to reproduce your issue. I have a large library and am not experiencing your reported issue. The key here is that your log excerpts may be showing secondary issues to a primary cause that isn’t in your excerpts.
EDIT, I am running the exact same make-series and I am getting 254 episodes per season (its still ingesting them atm) I did have to manually match the show.
