Yeah it's definitely true that you can still ovulate on T, because I have been doing it for over a year now, even though that time of the month went away. However it turns out I have endometriosis, but I had severe pain prior to starting T as well, just got worse on T. If you're comfortable enough and the pain is bad enough you could always go to the hospital for an ultrasound (or schedule one with a family doctor if you got one), since that's not exactly invasive or anything and they could check for cysts that way.
Anyways, hope you feel better and get better, these things can suck. I know a lot of people who have had cysts, and I can see they are not exactly fun experiences, really sucks the things that can happen to our bodies.