Your GC apparently has done more that a few buildings in his/her career and most likely has seen worse (never seen a pole barn go up in perfect conditions nor have I ever seen a truss that I would want to stain/varnish...they use "junk" lumber to build them but the engineering is such that it works. That is the beauty of trusses...using "junk" instead of long length straight timber that would require posts in your span unless you really want to open up your wallet. Been watching this story for a while...I'd say trust your GC.
Yeah the GC has been fabulous. I did not see it going on as I was at my day job.... they installed the windows in the barn in the wrong place. Called the guy at the home office I am working with and he admitted his crew screwed it up. Unfortunately for them the steel exterior had been put up and cut. So they are going to move the window to its correct location and send a new piece of steel to put up.