What? "That little hole is not something you can just live with?" - I don't get it and I already sad it a hundret times before and I'll never get it!
It's just a stupid little hole (you can't even call it hole at all ...) that your audience will never make sure! But I'm sure that some people might think "Why is there a screw in the top, holding nothing?" you know? Also you widen the hole by putting the screw back in because you give it a few more turns until the head is down on the top ...
I don't care about it! Remove the pickquard including the screws and never think about the holes again ... you'll see you'll learn to ignore them!