Drymouth (a homebrew game by Demiforce) has issues.
During the intro, there are times where the screen flashes black below a certain scanline. I think it might be related to inappropriate use of the STOP instruction. I've never seen what the game does on actual hardware, so I can't tell whether it's correct or not, but I'm sure that shouldn't be there.
There are also times during gameplay where the screen flashes black, such as right when the playfield appears. Again, I do not know its actual behavior on hardware. It might be doing something illegal.