I just went through this in deep detail with my baby doctor.
The issue with genital warts is that if they are present (Which yours are not), they may 'split' or 'open' and it is the blood/liquid that bleeds from them getting on to the child or in its mouth that is the danger. If a baby is born and that fluid/blood gets in to their mouth, and in to their throat, it can be extremely dangerous as the warts may grow there and suffocate the baby because you wouldn't be able to get to them to treat them.
Are you 100% sure you had actual genital warts- as in, was it pointed out to you by an actual doctor that they were, indeed, genital warts? I believed I had something similar to genital warts over the past few months (Even though over the past several years I have only been with my husband who was in fact a virgin before he met me) and I talked to my baby doctor about it. He said that if genital warts are present, they are only of concern if they are actually near the opening to the vagina or inside or on thr cervix, but that he would still take a look (My bumps were not near the opening, but rather just below the panty line, and I had an internal check up etc to make sure they were no where else) so I went to the hospital to meet with him there before my next appointment and when he took a look he said that as much as they looked like genital warts (And my other doc assumed they were), they are infact
not and that they were of no concern whatsoever. But because of how much they upset me and made me so self conscious, he was still able to freeze them (Called Cryo for warts.. it looks like a fire extinguisher and he sprayed the extremely cold mist on to them directly. It is 100% safe to do when pregnant). I am still healing as we speak, but it will SOOOO be worth being able to feel good about myself naked again! Lol
You see, pregnant women have so many growth hormones in their body that small bumps from anything to whatever it was that showed up on me, to moles or skin tags, etc, can show up because of the hormones. Also, whatever you may currently have (Skin tags, warts, moles, etc) going in to pregnancy is likely to get bigger. So what you believe may be genital warts could very well be something very different- whether something worse and more severe, or in my case, of no concern at all.
Because you said they have disappeared, then I say you should have no worries at all (And my doc agrees) BUT if you have
not yet been checked out since you first had noticed them before they went away, you -must- get checked out. Genital warts can locate themselves inside of your vagina even if there is nothing visible on the outside, and on to your cervix, which can be very dangerous, and worse- they can cause Cervical Cancer (#1 cause) so please, if you haven't already been checked, get an appointment, get a pap smear done and an exam to make sure.
Editted to add:
And if you had not been checked out, and it happens to be herpes (Herpes are known for showing up and going away, then showing up again, whereas genital warts usually only show up.. and once they go away they actually stay away) then you will need to take major precautions to keep your baby safe. Like I said above, make sure to have a full internal exam, and not just have your doctor 'assume' what they are by simply looking. They should need a pap smear at the least, or even a possible piece of one to send in. My family doctor (Not my baby doctor) took one look and said "Genital warts" but when my baby doc tested and did everything to take precautions, they showed up as harmless simple bumps such as a skin tag (I dont remember what exactly he called them). So many possibilities, and without getting properly diagnosed you may never know for sure.