From a medical perspective, and as a former biologist -
what he said might have bothered you, but biologically speaking the epithelium and structure of your vagina is not going to be identical to that of a natal woman's and therefore you are not going to suffer the exact same range of issues they potentially suffer from and that a regular gynecologist is trained to treat. Is it possible for a transwoman to get uterine fibroids in there, for example? I would imagine not - or if they can, they are not going to be of the uterine kind because there is no uterus to originate them. Are the sort of infections one might get there the same and are they treated the same? Is a transwoman as likely to develop cervical cancer on non-cervical epithelium? Transwomen are not going to experience menstruation issues. And so on. Some aspects may be the same for both cis and transwomen but many will not be. Some gyns might never have been advised on any issue relating to transgender women's vaginas. If I were a doctor who had not received this training - and I will be perfectly honest here - I would not be confident in treating you until I got that training or was at least advised on the similarity in ailments between the groups ciswomen and transwomen and efficacy of treatment of the latter via the manner of the former. Otherwise I would be "guessing", possibly putting my trans patient at risk.
Taking offense at this sort of thing is potentially seriously counterproductive - you must acknowledge the medical difference to some degree between oneself and a natal woman for your own safety, and I would expect the gynecologist to do so as well - it's his job. Reporting him or trying to get him fired or some such is only going to deprive other women of a health professional and put the man on the dole. Is that productive?
All these comments wanting him reported, punched etc - how does this help? Was the man actually rude or was he acknowledging his inexperience in the realm of treating transgender individuals, because frankly if I were in your position I'd rather the man did this than treated me without expertise or on an assumption, and then I would try to contact another such professional with more experience or one willing to look into the matter for me. Technically what he stated was correct, if you were born male you do not have uterine and cervical tissue, you have different tissue in there, and what that tissue is is going to depend on where your vagina was sourced from on your body. If I went to a urologist for a check up and they told me they didn't know how to deal with transmen's penises I would understand and appreciate the warning not rage and think about getting them fired. I would if they were abjectly rude and dishonest in their manner but what he stated was not untrue if indeed you had penile inversion as your method of forming your vagina, and perhaps he thought it was the best way he could be upfront about his inexperience. Rather than walking out you perhaps could have asked for his advice on whom to see about your problems and he may have had a recommendation. Each medical professional is different and makes judgements in their own way. Just last week I dealt with one who said he didn't feel qualified to deal with my specific problem and referred me to a medical practice that would. I am glad he did, and didn't go ahead treating me for something he was not confident in dealing with, because he might have screwed up the treatment.
It's going to take some time for the medical field to catch up with both the number of people knowledgeable in our issues and problems and for the list of our specific ailments to be better consolidated because there seems to be an exponential number of trans people coming forward for treatment and very few doctors with specialist knowledge of us. We will have to be patient.
I have no intention of keeping my history from doctors if I require any serious or invasive procedures, as that will only potentially threaten my life if they are unaware of the fact I do or do not have certain organs and requirements relating to my trans condition. To those who suggest never telling your medical professional what your real situation is, I would suggest you are advising people to put themselves in danger. Of course not all visits to the doctor will require disclosure, but to suggest someone never does, especially for a serious/related condition or problem, I think that is highly irresponsible and could potentially lead to the worst.
By all means be irritated if someone has properly disrespected you, but to state medical or biological truth is not disrespectful, nor is it to claim inexperience in an area. Which is what this sounds like it was. If he was truly a bigot I imagine he'd have had much more to say on the matter and thrown in a few actual jibes. As you tell it, it sounds like he complimented you, and made apparent his lack of knowledge or admission of his thinking there was some other specialist you should be seeing rather than him for the treatment. We really ought to be honest with the state of affairs regarding trans treatment - i.e. we need more proactive back and forth between ourselves and doctors and work toward solving the issue, not being offended because they don't know enough yet or aren't quite sure how to deal with us.