Yeah, unfortunately I opened up Pandoras box with my question.It's fine, neck fit around the sides has nada to do with tone. Even a .001 gap is still an air gap.
Yeah, the whole idea is that you want the same gap between the high and low E strings and the edge of the fretboard. If you had tuners on the guitar and a nut you could do it that way, I locate the bridge after I have the neck in the pocket .Thanks a lot Freeman, I'll update you tomorrow, people are sleeping in the house right now and I don't want to wake them up working on a guitar.
I have a notched straight edge here, so I will take a pen and draw a line on both sides and check if the bridge is centered.