I actually don't have many complaints.
Things I'm pleased about:
Donkey Kong '94: Admittedly I haven't played it as much as I should have, but I remember REALLY liking this game.
Wario Land: This is one of my favorite games period. Easily makes my top 25 games across all consoles.
Then of course there's Link's Awakening/Kirby's Dreamland 2 and others, but they sorta had to be there anyway.
Game I don't agree with:
Tetris: I think Tetris DX beats the hell out of the "original" Tetris in every gameplay related aspect, but I understand why Tetris had to be included, and TDX would have been another slot.
Super Mario Land/2: I suppose the first is decent, but it's really short. I'm also not a huge fan of the second. The first definitely had to be included though, just like Tetris.
Some I'd have included:
Mario Tennis: This game beats the N64 version, and every other tennis game I've ever played. Truly splendid.
Game and Watch Gallery(1, 2, or 3): High score fest games are not for everyone, but I play them a lot.
There are others like the Game Boy Camera/Kirby's Tilt and Tumble, but those are definitely not for everyone. I was always impressed by the depth of secrets in that camera though...
Of course it's all opinion, they're just here for the sake of discussion, not to change the (pretty solid) list.
Though I hear there's a runner up list coming...