I'll take a quick stab at this- the understanding I've gained is that you want the bridge to be in the
neighborhood of 5/16-3/8 inch thick, and the saddle to extend another 3/32 to 1/8 above that. Ideally
then, you want a straightedge laid across the top of the frets to land right on the top of the bridge. If
checking without the fretboard or frets in place, you need to subtract the thickness of these parts to
give you a height to check. If the fretboard is 1/4" thick, and the frets 1/16" tall, then you subtract
the total of these from the bridge height 3/8'= 6/16 -(1/4 + 1/16)= 1/16". So if you lay a straight edge
along the neck, you want it to touch at the top of the body, and be 1/16" above the top at the bridge
location. The angle works out to be around 1 1/2 degrees for 20'-25' radius tops and "standard" sized
guitars. So you leave the heel of the neck a little long to start, and start trimming to 1) set the angle
as above, and 2) end up with the 12th or14th fret (depending on the guitar design) right above the edge
of the body.
As Hesh mentions, a lot of builders take the radius off the upper kerfings, from the soundhole to the top
of the body, making that section of the top a true flat plane- it sounds difficult, but it's easy, and doesn't
seem to affect the sound, although you'll get a lot of opinions on that one