I can agree that objectively, as much as that is possible, the SNES is probably the best video game system ever made (I guess PS2 would be the other contender for that title). However N64 remains my favorite.
I agree with PortisheadBiscuit above; I too let the main Mario and Zelda games on a system weigh the most. And with that I feel Ocarina of Time + Mario 64 easily outdo A Link to the Past + Mario World. Besides that, Kart 64 outdoes Super MK, Star Fox 64 outdoes Star Fox SNES. Super Nintendo wins with Yoshi’s Island and it has a good Metroid though, but N64 on the other hand had better games by Rare.