One more thing to keep if your installation is running af_comics:
/plugins/af_comics/filters.local
So, if anyone is looking for the answer to the same question, the files to keep are:
/feed-icons
/cache/starred-images
/plugins.local
/themes.local
/cache/images
/plugins/af_comics/filters.local
By the way, fox, thank you for the seamless update. I was wary about doing the next git pull (my last one was back in December, before the massive refactoring), but in the end everything worked out, and I only had to update a handful of selectors in a custom theme.