You shouldn't have a problem as long as you aren't running the bullet into the rifling, which could cause excessive pressures. You'll actually see better accuracy sometimes with the bullet set just off the lands. As long as it feeds fine in your particular rifle and you are getting the accuracy that you like, you shouldn't have a problem with it. Remember that a lot of bullets don't even have a cannelure.
If I am loading one round for several rifles, then I will seat to the top of the cannelure, and measure to make sure it is within SAMMI spec. Those factory loads have to be able to fit in every factory rifle out there.