I see a lot of popular titles here, which are my favourites as well, but there's still tons of good games that were unspoken of here just yet. I'll list them here:
-Drill Dozer
-Pokemon Mystery Dungeon: Red Rescue Team
-Practically every Pokemon game: Fire Red & Leaf Green, Ruby & Sapphire, and superior to them all, Emerald (in my opinion)
-Boktai: The Sun Is In Your Hand (game mostly relies on the sun, I'm not kidding)
-Klonoa: Empire of Dreams, as well as the sequel Klonoa: Dream Champ Tournament (It's really hard)
-Summon Night: Swordcraft Story 1 and 2 (3 was released only in Japan)
-Riviera: The Promised Land
-Yggdra Union (my fav)
-Puyo Pop and Puyo Pop Fever
-Kuru Kuru Kururin and Kururin Paradise (the latter is in Japanese, but mechanics are the same as the first, so it's playable)
-Wario Ware Inc. and Wario Ware: Twisted
-Mother 3 (there's a perfect fan english translation on the internet)
-Zelda: A Link to the Past
-Denki Blocks (it may be for kids, but this game is hard, since it's a puzzle, even I can't solve most of those)
-Mario Party Advance
-Wario Land 4
And some Japanese-only ones that are worth trying out:
-Hatena Satena (I'm a sucker for puzzles)
-Guru Logic Champ (another puzzle, but easier, with clear instructions at the start, no japanese knowledge needed)
-The Legend of Starfy (Cute platformer)
-Rhythm Tengoku (First game of the Rhythm Heaven series, maybe you know that one the DS?)
Whew, that's all I know by heart :3 I hope that I filled up your list a bit~