>They are saying that this result will not resolve the disputes, because it doesn't address the core thing in dispute: that there are meaningful differences that people actually care about.

That's not their claim. Their claim is that there is some flaw ("confounding thing") in the study. They then go on to say that men and women's brains are "indistinguishable." Well, of course you will automatically assume there is a flaw if that is your belief.