I HAVE to comment on the neck dude, sorry...I am a jackson RR series fanatic, but never built one myself...There are several places to pick up discarded ones from jerks like us who get bigger and better ones. The curvature of the fretboard on a 24 fret neck is also pretty key IMHO, because its easier to reach and more comfortable. Also, are you thinking about your neck speed? My Jackson RR1 is pretty slow in comparison to my ESP LTD Horizon.
About the hiding of electronics, you CAN hide your wires and whatnot in any number of clever guises; but in the event of a dead POT or faulty pickup or broken connection because your friend kicked your guitar while it was resting on your amp...Its handy to get at them from the back. You dont need to route it the same exact way, you could make them smaller.
Good luck on this and post lots of pics about your progress...I mean everything!