To be fair, handhelds never sell as many units of software as consoles do. Tie ratios tend to be up towards 10 for consoles at the end of a generation, and 3-5 for handhelds. So it's expected that Wii U software will surpass Vita software.
As a Nintendo gamer (who does not, and likely will not, own a Vita), all I want is for both systems to get stronger and sell better.