I haven't tested enough, but I think the new minigame is required for the True Ending now. And also, routing might be different due to some position changes on puzzle pieces.

What should the ruling on the new update be?

(Personally, since there are so few runners of this, I'd say do like Hollow Knight or A Hat in Time, and just use a Patch variable. Maybe in the future, when more people run this, an actual subcategory should be made, but for now I'd say a variable is enough)

I haven't played through the game since the update came out, but I'm assuming Mona is required since they're a part of the family tree. I also wasn't aware that they moved some puzzle pieces around, that's interesting.

I think a patch variable will be fine for now, though I'm not too familiar with how it works, so I'm not sure how it should be set up. Should I just add a "Version" variable and add "unpatched" and "patched" values?

Something like that would work, yes.

About the puzzle pieces, the patch mentions that some of them were moved, although I can't say where yet. I'm currently re-testing the route and see what exactly changed, but it'll take a bit.

Another thing they added (I forgot to talk about it) is you can skip Pat's minigames on the second loop of the game. I've only seen this from a video, so I can't say yet if it puts you back to Fun District anyway or not, but if it doesn't, that could be a pretty big change for routing.

And finally, although not useful in the speedrun, you can consume time freely until the next Pat event on the 3rd loop onwards by talking to Bub. Again, really useful casually, probably not in this context.

Just added the variables and updated the runs on the leaderboard with them. I really should get around to playing through this again. I have the physical Switch version, so I could maybe look into loading time comparisons and stuff.