Here are my favorite three games (listed from first to third) from each system I played extensively, ranked based on my enjoyment and time spent playing them:
NES: Final Fantasy, Metroid, Zelda 2: Link’s Adventure
SNES: Chrono Trigger, Secret of Mana, Final Fantasy III
N64: Mario 64, Goldeneye, Mario Kart 64 ::EDIT:: Ocarina of Time fits in here somewhere!
PS2: Shadow of the Colossus, God of War, GTA San Andreas
GameCube: Mario Kart Double Dash, Super Smash Brothers Melee, Metroid Prime I
XBOX: Morrowind, Knights of the Old Republic, Halo
Wii: Twilight Princess, Resident Evil 4, and definitely NOT Mario Galaxy
XBOX 360: Mass Effect, Oblivion, Halo 3
So please post comments if you strongly agree or disagree with my choices. I’d like to see which games you enjoyed most, especially from the Super Nintendo and the 360.