Golden Sun. FF-style battles, LoZ:OoT style puzzles. Characters and a plot I love. It's a great game (I treat them like one game, just as I treat Lord of the Rings like one book), and one of the best of all time. Still waiting for a sequel.

Well, it's actually a tie between Golden Sun and Crono Trigger. Crono Trigger had insanely good characters and some of the best storytelling of all time. Everything about the game was executed perfectly.