Let's see here...
Retail:
Animal Crossing: New Leaf
Castlevania: Lords of Shadow ~ The Mirror of Fate
Cave Story 3D
Fire Emblem: Awakening
The Legend of Zelda: Ocarina of Time 3D
Luigi's Mansion: Dark Moon
Mario Kart 7
New Super Mario Bros. 2
Paper Mario: Sticker Star
Resident Evil: Revelations
Sonic Generations
Star Fox 64 3D
Super Mario 3D Land
Digital:
10 NES Ambassador Games
10 GBA Ambassador Games
3D Classics: ExciteBike
Plants vs. Zombies
Pokedex 3D Pro
Pushmo
Shantae: Risky's Revenge
Soul of Darkness
Virtual Console:
Super Mario Land
Super Mario Land 2: 6 Golden Coins
Though since I lost my 3DS I've lost all of my digital games.