This game has been in a weird place with Nintendo. As in the beginning it was rejected by the Big N due to the religious over themes. However, now that Nindes are a thing. Nintendo is all for Issacs debut on the New 3ds and Wii U.

This is starting to look very unlikely due to a couple of tweet that the Nicalis posted recently. The Tweets were as followed:

From the tweets themselves you can see he says that the Wii U is no more powerful than a Vita. Which I don’t know about you but it sounds like some real bullshit. I have played Blinding of Issac on my Vita, PS3, and PS4 which it seems like a very simple game that doesn’t need much resources. Again I would like to remind you all I am a fellow developer and am currently working on a 2d game. The reason I bring this up is because a 2d game that is very optimized correctly would be able to run on a android device. So even if the Wii U is as powerful as the Vita then it should be able to run the game with no problem but I feel like Tyrone Rodriguez (@tyronerodriguez) is full of shit and just very lazy or just isn’t good at porting games.
Source: Nintendo Life