Normal pap smears are good, but they are not meant to pick up all HPV infections. They only detect those infections that involve the cervix and cause certain kinds of pre-cancer abnormalities. Some doctors and now routinely test for HPV when paps are done, in addition to the pap test itself. But even when these tests are negative, HPV may be present.
You seem more worried about HPV than necessary. Nobody wants it, but everybody gets it; at least 80% and probably 90+% of all sexually active people get genital HPV at one time or another. In fact, most people probably have multiple infections. Most cases never cause symptoms, warts, or abnormal paps, and most of them just go away on their own.
Please speak with your ObG about getting immunized against HPV. Every woman under age 26 should be vaccinated with one of the two available vaccines. One vaccine protects against 4 types, the two that cause 70% of cervical cancer (HPV types 16 and 18) and the two that cause 90% of genital warts (HPV 6 and 11). The other protects only against type 16 and 18. It can't be given while you're pregnant, but afterward would be a good idea for you.
Welcome to the STD forum. I'll try to help.
The most important information here is that neither your doctor nor your dentist can see anything wrong. Therefore, almost certainly there is nothing is there, at least nothing abnormal. Sometimes persons worried about particular health problems can notice things that really are are not abnormal at all, often just a variation in skin (or in this case lining of the mouth) that has been present all along but not noticed.
Warts are rare in the mouth and throat. If you had a genital wart virus infection, it would almost certainly show up first (and only) as warts in the genital area. Certainly it would be very rare for such a problem to show up only in the mouth. If you remain concerned, discuss all this with your obsetrician. If you have no readily visible warts that s/he can see in the genital area, there is no concern for either your health or your baby's.
I hope this helps. Best wishes for a successful pregancy and a healthy baby!
HHH, MD
Also forgot to ask, I have had normal paps since the questionable sexual encounter four years ago...am I in the clear as far as genital HPV goes from that encounter or could I still end up with an abnormal pap?