1. The Legend of Zelda: A Link to the Past
2. Half-life 2
3. Xenogears
4. Super Metroid
5. The Legend of Zelda: Wind Waker
6. Metroid Prime
7. Doom
8. Final Fantasy VII
9. Counter-strike
10. Grand Theft Auto: Vice City

After a few revisions I'd say that list is solid.

Other games that could have made it: Jak 2, Viewtiful Joe, other Final Fantasies, all the other Metroid games, GTA: SA, and probably a lot of others that escape me at the moment.