I had genital warts removal done with laser therapy. It was actually easier than I expected. My doctor numbed the area, so there was no pain.
A few days after I went home however, I noticed a yellow discharge and burning pain from the warts. I went back to my doctor who said that it's an infection. I had to take oral antibiotics to treat it. So even though it's a popular treatment, especially for genital warts, laser wart removal can cause problems.
The other downside is that if anti-viral medications aren't used, the warts can come back soon after laser treatment.