Welp, pushing seeds to kinda have done it. The ports are perfectly sticking out of the IO-shield, and I was able to screw the board in place, but only four out of eight screws aligned with the stand-offs, the rest just fall and catch by their heads. Had a similar issue, and is screwing in every screw necessary, since I don't know how to align the last holes, especially since the stand-offs couldn't have ben more in place?