I just got my ES-3 in the mail yesterday, so it's great to see another build progressing ahead of mine - I'll be eager to see your progress and I'll probably ask a lot of questions. Speaking of which, one thing I noticed on mine is that the bottom of the neck opening on the body (the part piece closest to the back of the guitar, that the bottom of the neck glues onto) is very rough with lots of torn out fibres (I'll try to get a picture). I've looked at your photos but don't see what that shows that area clearly - does yours (or anyone else's whose reading this) look like that also? Wondering if it's a concern for strength when gluing. As tweaky mentions, you can't easily glue the sides so I'd think it's very important to get a solid glue joint on the bottom.
Oh, BTW what's that white block in your first photo at the top of this page?