All right here I go...
1. I'm trying to make a room where all block triggers need to be pushed before a shutter will open, but after just covering one, the door opens. I've done rooms like this before, but just this time it doesn't work. In case it's relevant, solid blocks is on, freeform dungeons are off, and block->shutters is off. The only difference I notice between the rooms, is the one that works has blocks that are pushed multiple times each, while only one push per block is required with the latter. (It's in a dungeon by the way).
2. I have a shop in an overworld... The shop sells three things for free: bombs, hearts. and magic. Sometimes when I go in the shop, I can only buy bombs. There doesn't seem to be any pattern to it, except the problem is permanent when it happens once.
3. When trying to test dungeons, I give myself all items available for that point in the game. Naryu's Love, and Farore's Wind constantly uncheck themselves in the init data page.
(I have more to add, but I'm out of time right now, so I'll edit later)