The idea that Capcom would have anything to lose in terms of IP 'deterioration' by putting one on Wii U, on Nintendo's dollar or not, isn't relevant. They've had a ton of franchises bounce back just fine after flirtations with niche platforms. People are instantly willing to forgive and forget when an IP they like returns to a platform they own. What's more, broadening an IP is never a bad thing in any case. Licensing projects to multiple platforms is the kind of thing which has made Resident Evil an evergreen franchise, and SF/Megaman in their prime (and it's worth noting that those franchises didn't deteriorate because they went to a platform nobody wanted, it was because people simply got bored of them).
That said, while I'm sure Nintendo will continue to chase these kinds of games, I think DMC is a long shot, simply because it would be so expensive, and they now definitively have Bayo. But so long as a Nintendo DMC game was good (ie better than DmC, which it no doubt would be), then Capcom and the franchise would come out fine.