I wouldn't remove the baby from the egg. They will come out when they are ready. Get a little saline solution and rinse the discoloration out of the egg. You can find the saline solution at the drug store in the eye care area. Before you rinse, put the solution in the incubator for a while so it becomes the same temperature that is inside your incubator.

Also, you may want to make the cut a little bigger so you can see what is going on. Ensure that the umbilical cord is not wrapped around the baby. If it is, then gently untangle it, but inside the egg, if possible. At day 60, they should come out soon.