One more biologist responding. (Uni prof) Didn't read the whole linked thread because my eyes glazed over. She's making the argument that because there are developmental disorders, such as, say, being born without a leg, therefore how many legs humans have is complicated. She goes on to elaborate that as little as a toe could be lacking and to wonder whether that should make a big difference when counting legs. And so on.
It's also true that there's nothing to refute. At least as far as I read, the conditions she describes exist. They're also irrelevant.
To begin with, the fact of developmental disorders doesn't change the ordinary process whereby humans have two legs. Or a given sex.
To go on with, none of that has anything to do with the trans issue. The argument there is that sex does not matter. It is your innate gender that gives you your sexuality.
The whole argument is that biology is irrelevant. So what is the use of arguing abstruse biological points? Unless the hope is to confuse enough nonbiologists into conceding.
And the innate gender identity is also not a biological thing. It is not found in the brain, or the heart or the appendix. It's one of these ineffable essences like a soul. Which doesn't mean it doesn't exist. It could. It might not. That's something for you and your god to work out. Ever since we discovered how much better it works to separate beliefs and state, other people are not compelled to support deeply held feelings.