You can't pass the virus back and fourth like you can with an STD such as chlamydia. Once you have that strain, it will forever be in your body as it is a virus and there is no cure. After some time though, the virus lays sleeping and undetectable meaning you cannot pass the virus on and you won't have any symptoms. Since she has the same strain as you do, it will always be in her body and having sex with someone who has the same strain will not effect it in anyway. It will only be the case when a new strain is introduced from you being with someone outside of the relationship, then she may start to see symptoms of a different wart strain.
And you should wear a condom while you are in recovery mode. For some reason, clearance occurs quicker if you wear a condom. These things come in waves and so stay with the condom until you go at least 6 months without any warts. Maybe 12-24 months. After that period, it doesn't matter as it will be dormant. Good luck!
I recently found out I have positive low risk strains on my cervix, as well as high risk. Warts weren't found, but I saw that my pap smear was LSIL - two months after it was "normal". I have to go back for a copolscopy to see what is going on. I think I got this positive low risk after a guy assaulted me 6 months ago and stuck his penis in me for around 10 min. without any other sexual contact. I think if I get warts, the likelihood would be in places I can't see, like on my cervix or in the vaginal walls where initial friction or contact must've been at.
I have a question about having sex from now on. Since I'm infected, if I have sex with a condom, would I risk getting more warts to develop at different locations in the anogenital region due to friction? I don't plan on having sex until my partner finishes Guardasil, but I want to ask ahead of time. The guidelines says to wait 3-6 months after a breakout or treatment, but I can't even tell if I have a breakout since my infection in inside my body with no signs on the outside. I want to do what I can now to minimize any problems of warts growing in the future and am praying that this virus will go dormant in a year. Thanks in advance for answering my question.