I've had the load time problem.
I've also encountered the sausage problem.
I've encountered a bug with the music guy in the Battle Tower where the music you selected refuses to play if you save then reload in the Battle Tower. Meaning if you are playing the happy tune and you save then reload and then ask him to play it again he says no problem but the music refuses to play.
I've encountered a problem in the log book where it's nearly impossible to get the cursor to move down or up when starting at the top or the bottom of the log book for quests.