A few thoughts:
It would be valuable to do an outside view sanity check: historically, how frequently have research programs of similar prestige been discredited?
There are all the standard problems with authority---lots of folks insist that they're in the mainstream and that opposing views have been discredited. Clearly nativism &c. have been discredited in your mind; when do they get canonically discredited? Sometimes I almost think that everyone would be better off if everyone just directly talked about how the world really is rather than swiping at the integrity of each other's research programs, but I'm probably just being naive.
Re 3, my domain knowledge is somewhat weak, so everyone ignore me if my very words are confused, but I'm not sure what would count as a refutation or the mind being an algorithm. Surely (surely?) most would agree that the brain is not literally a computer as we ordinarily think of computers, but I understand algorithm in the broadest sense to refer to some systematic mechanism for accomplishing a task. Thought isn't ontologically fundamental; the brain systematically accomplishes something; why shouldn't we speak of abstracting away an algorithm from that? Maybe I've just made computationalism an empty tautology, but I don't ... think so.
I don't think the innate/learned dichotomy is fundamental; it's both, everyone knows that's it's both, everyone knows that everyone knows that it's both. Like that old analogy, a rectangle's area is a product of length and width. What specific questions of fact are people confused about?
I think these research programs represent something without a clear historical precedent. Traditional economics and generative linguistics, for example, could be compared to pre-scientific disciplines that were overthrown by scientific disciplines. But both exhibit a high degree of formal and institutional sophistication. I don't think pre-Copernican astronomy had the same level of sophistication. Economics also has data (although so did geocentric astronomy) whereas the generative tradition in linguistics considers data misleading and prefers intuitive ju...
I would like to propose this as a thread for people to write in their predictions for the next year and the next decade, when practical with probabilities attached. I'll probably make some in the comments.