Your story doesn't make a lot of sense. Molluscum and herpes don't look anything like each other. I suggest you see an M.D. dermatologist (perhaps the one who employs the PA), and suggest a possible herpes 2 blood test. A negative one would go a long way to reassuring you and clarifying th situation. Your description does not sound like herpes (and the culture was negative.) Ask the dermatologist.
My question was whether or not you thought i had genital warts or Mulloscum
If they were any kind of wart, they would be molluscum. Who said they were genital warts? The PA said herpes.
Only someone who sees you in person can render a specific diagnosis.
I and others have experienced issues with Aldara before where it causes pain. Since the lotion is super potent, it's easy to get it on your testicles and it will cause burning. Did the burning go away after you stopped using the Aldara?
A related discussion, Molluscum Contagiosum