If they aren't bothering you right now, leave it alone until they are. Keep in mind that the more there are, the quicker they will multiply, i.e. it took several weeks before 1 aptasia turned into to or three, but hardly any time at all for those 2 or 3 to turn into 10 or so.
At that point I decided to get some peppermint shrimp. They have eaten the smaller ones and appear to be keeping new ones from coming up, and the aptasia that they haven't eaten yet seem to be scared. Before I got the peps they were always expanded with their tentacles fully extended, now that they have a predator in the tank, they take a much lower profile and aren't nearly as noticable as before.
There are plenty of posts on this board about killing them. I don't know whats in your tank, but if you can't have peppermint shrimp because some of your fish would eat them, I saw a thread a few weeks back about something called Joe's Juice that seemed to work really well.