For me, I had a problem with Change memory&cache (I mentioned it before), in forest temple. The game froze when I was un/twisting (forgot which) the corridor, I shot the arrow, and the camera moves through the corridor, and back, then it freezes. Changing it to default fixes this (I haven't tried others). But I had the lost woods prob, so I don't think either default or change mem&cache are perfect, but these rarely happen so it doesn't bother me much at all.
EDIT: Oh I forgot, another freeze, using default (I think), after completing the shadow temple, and getting warped back the graveyard, walking into kakariko village freezes the game. I changed back to change mem&cache (I think), and it was ok. it was a bitch though, since shadow temple is prob the only one which has a boss door damn deep inside the dungeon.