If your tallest piston is .006 out of the hole do Like Don says use a .040 + head gasket and call it good.
If its's going to keep you up at night take those tall ones to your machine shop and have them resize the rods again. Tell them what's up.
The piston/rod that is .006 out of the hole, they need to cut .006 off of both, the rod & the cap. When they hone it back to size it should be close to zero. I had a Pontiac rod that was .020 something short years ago because someone had cut the crap out of it trying to save it. Needless to say it got tossed!
Jeff