Eh, i'll throw my own in
NES: Super Mario Bros (Metroid)
Master System: Phantasy Star (Alex Kidd in Miracle World)
Atari 7800: Basket Brawl (Ninja Golf)
Super NES: Street Fighter II (Super Metroid)
Genesis: Sonic the Hedgehog (Mortal Kombat II)
T16: Blazing Lazers (Bonk's Adventure)
Neo-Geo: Samurai Showdown (Metal Slug)
PlayStation: Final Fantasy 7(Metal Gear Solid)
Nintendo 64: Super Mario 64(Goldeneye 007)
Saturn: Virtua Fighter 2 (NiGHTS)
3DO: Crash n' Burn (Alone in the Dark)
Jaguar: Alien vs Predator (Tempest 2000)
PlayStation 2: GTA Vice City (Gran Turismo 3)
Xbox: Halo 2 (Fable)
GameCube: Super Smash Bros Melee (Wind Waker)
Dreamcast: Phantasy Star Online (Sonic Adventure)
Wii (so far): Wii Sports (Super Smash Bros Brawl)
360 (so far): Gears of War (Halo 3)
PS3 (so far, includes announced titles): Gran Turismo 5 (LittleBigPlanet)
These are the most significant games per console, though, which is somewhat different from the best game (otherwise Sonic 3 would be on the Genesis list, Metroid Prime on the GameCube, OoT on the N64)