Don't forget, the 3DS has the possibility to download things. Maybe they will even patch the game? Never know.
Valkyrie Profile was heavily bugged. Once every ten saves the save was ok. So, normally you saved the game, tried to load it, saved it again, tried to load it. You did that till the loading worked.
Ar Tonelico II is bad too. Always make security copies of your saves, because... well, out of no reason it suddenly gets corrupted. : D Yay.
Assassin's Creed Games tend to have small bugs that kill your savegames. Haven't encountered any so far though.
A few old games even had bugs that made it impossible to finish them. Like the one hanging stone in Lion King. Absolutely crucial to reach the final fight. But *invisible* for the character. He won't hold onto it.
Still a fun game though.
@Clover: Well, I don't mind her to be there again, as long as it makes sense in the story.
But I don't mind a completely new crew either.