The Mass Effects and Seiken Densetsu 3. Not only do you pick 3 playable characters out of 6, but you also pick 1 out of 3 final bosses. And there is extra dialogue if 2 of your playable characters are from nations at war with each other. I don't think they argue, but they flesh out the backstory a bit more. Never had a chance to test it out myself really, because there were only 3 save slots.