I honestly really liked Rhythm Thief. The characters, the setting, the aesthetic, the different rhythm games and styles. I think the story stumbles a bit near the end but it still left me wanting more and another a sequel. It's a game I wish had more success as it might have led to Sega doing more stuff like it instead of going with Sonic Boom.
Animal Crossing: New Leaf doesn't have a Wii U equivalent. It may not be everyone's cup of tea and as my first Animal Crossing game, I may be more enthusiastic about it than others but I've found it a very enjoyable and engrossing game.
Although Pushmo World is available on the Wii U, the original Pushmo and Crashmo started on 3DS and are still worth checking out if you are into puzzlers.
There's a wide range of games on 3DS not on Wii U like Kirby Triple Deluxe, Chibi-Robo Zip Lash, Fantasy Life, Fire Emblem, Luigi's Mansion: Dark Moon, Box Boy, Phoenix Wright: Dual Destinies, Professor Layton, Kid Icarus, Mario Golf: World Tour or Mario & Luigi RPGs to name but a few. Whatever gaming taste you have will probably be covered on the system.