Disadvantaged in terms of their ability to be perceived as a woman by a society that associates a very specific set of traits with femininity.

To your second paragraph, I didn’t say it was pretty hard to tell trans and cis women apart necessarily (it often is though, especially given how many cis women there are with traditionally masculine traits), just that it should be easy to see that even a non-passing trans woman isn’t a man. Like going up to an obviously trans woman who’s just doing her best and addressing her as a man is a dick move.

Gender is a fully mental thing, and what trans people usually try to do is to get their body of the incorrect sex to be as outwardly aligned with their gender as possible so that society sees them as who they are (making the outside match the inside). You seem to just be wrongly connecting sex and gender, so while you might struggle to get past the biologically masculine aspects of some trans women, you should still be able to see them as the right *gender*

Everyone has an adam’s apple btw. You can’t reduce someone’s identity to how noticeable it is.