Any good and reputable shop can and will automatically do this quality of work. Will you have to pay more? Probably so but in a package deal I can't see it running much more. You can run tight quench with loose pistons also. If they are a good shop they will use a dial indicator on a bridge and rock the piston and take the average in and out of the hole, go to opposite side (outboard or vice versa), and do the same. I had to do this on my build. Then you you surface the deck of the block to get it where you want. May have to do that a couple time, get it close, then make a final cleanup pass. It just takes attention to detail and pride in workmanship.