Liner protrusion 60 series Non-EGR

I had a guy install inserts into my block. He said he machines it so the liner has .003" to .004" of protrusion. I measured .005" consistently on all liners when i installed with no seals and 45lbft of down pressure. I told him i was concerned that it was too far out of specification but he let me know that the blocks are always wavy and have a history of blowing gaskets so he goes with that measurement. he also told me he has never had to re cut a block. Maybe i am just being a pain but i am hesitant to re assemble with the measurements i am getting. has anyone gone beyond the spec. of -0.0005 to 0.003 in. and had luck with that? not sure the -.0005 is accurate either but it comes from the Detroit manual.
Engine Model: 6067MK60

 

Appreciate that. The machinist was referred to me by the machine shop that the Detroit dealer uses. He is an ex Empire Cat Machinist

 

I have it assembled. I questioned the torque on one of the head bolts because it kept turning. It did not neck the bolt down. I pulled and installed a new bolt and washer. The new bolt took the torque well. I do have another question about a wire that the Detroit mechanic told me retained the injector harness. I cant figure out the orientation. Does it go into the hole in the head or bolt to the Jake head on the rear?