only difference between the blocks to my knowledge was the swap to a one peice rear seal, the trans bellhousing bolt holes should be the same. Did the block sit out anywhere for an extended period of time? check the holes for debris and run a tap through them but dont force them too far in, im not sure if youd hit a water jacket or anything. But it sounds to me like there is just something in the holes blockin them up. To be sure though, call up your local chevy parts dealer and ask if the pn for the bolts are the same for the two different engine applications. if they are different, they may have changed the length or thread count or something along those lines.