I've added categories for Best/Normal/Bad ending Co-op runs. They're under Miscellaneous.
Separate categories to split Steam and Switch? I agree. It was already possible to filter to just one platform but for now I've changed it to a subcategory.
This was a few days ago now but I guess it deserves its own thread. There's a Cave Story+ leaderboard now, for the Steam and Switch releases: http://www.speedrun.com/cave_story_plus
I don't see any reason not to allow the cutscene skipping. It's built in, you don't need to unlock it or anything, and all it cuts out is the least interesting part of the run (cutscenes). To be honest, I'm not a huge fan of making separate categories for it. The game already has a ton of categories and mashing through cutscenes just doesn't really make the run any better. I'd say just go for it.