Some games are missing: Salt & Sanctuary (Vita), Hyrule Warriors (3DS) and Metroid Prime: Federation Force (3DS) And yes, I'm looking forward to MP: FF, and yes, I'm a Metroid fan. It's just an spin-off get over it already! The game looks good.
Now for me the 3DS has a better catalog (MP: FF, Zelda, Paper Jam, Hyrule Warriors, Yo-kai Watch, Monter Hunter, and some others). Vita on the other side has also very good games (Salt & Sanctuary, The Legend of Heroes, Danganronpa, SAO 2, Digimon, and some others).
PD: Yes, Vita has a lot of niche games (RPG's, Visual novels, Indies) but the 3DS also has its own niche games. Just look at the sales of games like Etrian Odyssey, Fire Emblem, or Bravely Default. They are not main stream games like Zelda, Mario, or Pokémon.
