I am confused

Okay. The short story is I was dxd with HPV over 15 years ago. I don't remember which strain, BUT I did have ACGUS within months of breaking up with an old bf in college who gave it to me and 2 of my friends! One of these friends also got pre-cancerous cells. Anyhow, it went away for a loooong time. I recently had an abnormal Pap which showed LSIL.
I am having a colpo on Jan 31.
In the meantime, I have started having postcoital bleeding and cramping/pain during intercourse with my husband. The gyn put me on a course of Flagyl in case of infection. There is no bad smell, no itching, etc. I called them back because it is still happening even with abx treatment. The nurse said I could come back in quick to check for other infection. However, during my Pap, I asked for STD testing (gonorrhea and chlamydia)etc, and these came back normal! During the exam, the doctor said everything looked smooth inside and there were no areas of inflammation, etc.

I guess I don't understand WHY they think I could still have infection? I was on cipro for a week before the Flagyl too for sinus stuff. Now, I don't have any infection symptoms, not even yeast infection symptoms, and I know my body pretty well.

I asked the nurse if the bleeding and intercourse pain could just be from the abnormal cells, and she tells me no,,,it is probably infection. BTW, the pain/bleeding only happens during missionary position....weird.
Therefore, I am confused.

Either way, THANK YOU for anyone who reads through all this!!