Chrono Trigger got my vote, but it's nearly 2000 votes behind SM64 at this point, so I don't think it will even finish second in that bracket.
Every year CT gets near the end, but none of the CT characters nor the game ever makes it to the final bracket. It's just nice to see that other parts of the gaming community haven't forgotten about the game.
FF7 was good, and really, I don't know I could pick which game was "better" persay, but I voted for CT anyway. I know there's ton of FF7 fanboys ready to vote for it, so, CT needed my help more :p
I know at least in my game, FF7 does have a pretty significant impact, but as time passes I'm finding myself more and more trying to increase the Chrono influence, so I think from a longevity standpoint, CT is winning out with me.