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Some animals do have language and animals that are around people a lot likely have an inner voice that is their owner’s voice.
They likely don’t plan using this voice, the way people do. But it certainly influences their behavior.
A dog that’s been yelled at for getting in the garbage might hear a no in their head even if their owners at work.
It sounds like she’s skeptical of you being trans and was hoping it was a phase. Bringing up HRT has made her understand that it’s not.
The rest is her fear. Rather it’s transphobia or fear of you having to live as a trans person and face bogotry is an important consideration.
Having her sit in on therapy, as someone else suggested, sounds like a good path forward. Address her fears and the fact that HRT is health care. If she can’t support your health after that, she’s not supportiv.