I have now spoken to the supplier, they say "the seal lip will run in the grooves and not be a problem". Well that's okay then. But, maybe I am just being pickky as the grooves are not concentric rings, they are a spiral that is formed during CNC machining of the CV joint body. As such the lip of the seal will follow the spiral (like a screw thread) until they reach a point where it will "jump the thread". This is the point where most wear would occur to the seal lip. So I decided to err on the side of caution and mounted each drive shaft in a lathe and using fine emery sticks I smoothed the area of concern to a finish that I consider to be similar to the original seal surface. I am now a lot happier about using the driveshafts. I have attached a picture of the finished surface.