The virus never leaves the body. Clearance means you are not infectious, at this time. Which for you is when all of the anal warts are gone. No one knows if they will ever be infectious again or not. Most are not. Tiny traces of the virus clings to DNA. This is why women can go from being positive to negative to positive again, without having sex after they get a procedure done to make them negative. All i can say is boost your immune system via healthy living, exercise, vitamins, less booze, no cigs, more sleep, less stress, etc. It will aid in the recovery as will latex condom use.