Metal Slug, SMB3, Sonic 2, Megaman Zero X2, Pokemon Crystal (sorry, couldnt avoid it), Bubsy: 'Claws Encounters of the Furred Kind', Zelda: Links Awakening, LOZ:LTTP, Jump Ultimate Stars, Zoo Keeper...
But i have to say the web-classic that is N easily tops the list!!
Im surprised no one has mentioned Earthbound... but then thats probably because it never made it out of the US or Japan...