krenamer can do this. It just is a regex front end. You could do it with a shell script too.

There are various GUI tools (eg., gprename, krename) but I prefer qmv, a CLI tool from the renameutils package. It opens filenames into a vim (or your default editor) session, with which you can use global regex search/replace commands to rename files.

Do you have the means to write your own Python script? If so, that would be a simple way to solve your problem.

you can try rename: https://www.man7.org/linux/man-pages/man1/rename.1.html

or
rename 's/expression/replacement/' filename

select range of episodes per season then add season number (eg S01) in replacement string.

then restart numbering for next set of episodes (eg 01 to 12) and add S02. and so on. more tedious than the gui Rename method but doable.

If the names don’t have any break for seasons, or the name of the episode, I think it’s going to take a couple steps. Renaming is easy, but you’re adding info that’s not in the name. I can only suggest trying something like tvnamer, or search for a similar project.