Chrono Trigger is by far my favourite SNES game. With all the praise it, and the sequel still get today, I'm surprised they haven't made another, I think there were plans for another but it got scrapped.
Of course I gotta mention some other top SNES games:
Link to the Past,
DK 1 & 2,
Mario All-stars,
FF6,
Mario Kart,
Mario RPG ,
Megaman X1 - 3,
Contra 3,
Super Castlevania IV,
Yoshi's Island,
Turtles IV - Turtles in Time,
and of course Super Metroid.