360 Intake manifold bolt misfit

My 360 was recently rebuilt by a local experienced and respected builder. It has not been installed into the '70 Dart yet. The intake manifold bolts I provided him are 1 1/8" long, not knowing if that is what I needed or not. The intake is a Performer RPM with Edelbrock heads and gaskets. I noticed that some other advertised intake bolts are longer, so I took one of mine out to check and found it only penetrated the head by about 3-4 threads before it bottomed out on the manifold. It doesn't seem deep enough to me, so I asked him about it and he doesn't think it is a problem since it is not a moving part and seems to seal correctly. I tried some Edelbrock bolts that are longer and they only thread in by hand about the same distance until they interfere with the bottom edge of each intake bolt hole, visibly a bit off center, making it too difficult to thread by hand. This is probably due to my block being surfaced at some point which lowered the heads, causing a few thousandths inch misalignment and interference. I don't want to force a bolt that won't go in finger tight unless I know it is correct. Maybe the stock cast iron intake has a thinner bolt flange area than the Edelbrock, and a 1 1/8" bolt works for that combo. I have heard of some people enlarging the bolt holes to make it fit, but I don't want to do that. SO- I put it out to FABO members and experts for discussion and advice. Thanks in advance!