Fire Emblem (There's two of them... I prefer Sacred Stones, but they're both good.)
Legend of Zelda: The Minish Cap
Mario & Luigi: Superstar Saga
Mega Man Battle Network (MMBN2 and MMBN3 are the only good ones.)
Tactics Ogre: The Knight of Lodis (Bolded for awesomeness.)
WarioWare (I prefer WarioWare: Twisted, but lots of folks prefer the first one.)
Advance Wars (AW2 > AW1)