This is just off the top of my head, based on both games I've played and what I know to be general consensus, but this is what I would consider to be the greatest game from each Nintendo console:
NES: Super Mario Bros 3
SNES: The Legend of Zelda: A Link to the Past (Honorable mention Super Metroid, Super Mario World)
N64: The Legend of Zelda: Ocarina of Time (Honorable mention Super Mario 64)
GameCube: The Legend of Zelda: The WindWaker
Wii: Super Mario Galaxy*
Wii U: The Legend of Zelda: Breath of the Wild
Switch: Super Smash Brothers Ultimate (Honorable mention Super Mario Odyssey*)
*=I've never actually played for myself
Feel free to debate/make your own list.
NES: Super Mario Bros 3
SNES: The Legend of Zelda: A Link to the Past (Honorable mention Super Metroid, Super Mario World)
N64: The Legend of Zelda: Ocarina of Time (Honorable mention Super Mario 64)
GameCube: The Legend of Zelda: The WindWaker
Wii: Super Mario Galaxy*
Wii U: The Legend of Zelda: Breath of the Wild
Switch: Super Smash Brothers Ultimate (Honorable mention Super Mario Odyssey*)
*=I've never actually played for myself
Feel free to debate/make your own list.