Thanks for the comments. I hope your comment about if the medicine woks and it starts healing, it wont matte whether rub the excess off each day (because if it works then there shouldn't be any excess to rub off). All I do is after I brush my teeth in the morning is gently put a wet washcloth on the areas. I am back at work now and I tried to go a couple days without doing it. It will look fine most of the day but then after I eat or talk a lot it is much more noticeable.
I talked to my doc and he is going to increase my dose to 25mg/day (right now I'm taking it every other day) next week. It's only been about 3 weeks and I know it takes time. I also switched to a SLS free toothpaste.