I don't think Capcom has really any idea of what they are doing, but as long as they make decent fighting games I'm still on board. Don't get me wrong, I think there lack of support for Mega Man and other franchises is a bad decision on their part, but since I've never played the Legends series I really don't have a say in the matter.
I suppose the only good thing out of this whole situation is that I've been listening to The Protomen almost continuously in the last two weeks. After seeing them in concert at PAX East this year I was interested in their music, but never really took the time to track down the albums until recently. So happy I have them now.