This is a woman who you could have sex with without realizing she was born with a Y chromosome. She has gone through so much because she simply cannot identify with the sex assigned her at birth.
I think she's done enough to earn the right to be called "she."
A side question, what would you call someone born with both sex organs who chose to have one removed? Would that person be called by the pronoun they identified with, or simply "it"?
Sex, Gender (two different things btw) and all that is incredibly complex and trying to make it fit into Black and White definitions is a massive oversimplification of things.