Some really interesting thoughts in this thread,
I agree, a solid paint finish will mask the tone of the wood. Its like putting fabric over a snare drum, it will change the tone.
As for the tonewood thing, there are some variants, for example the density of the wood, thru vs bolt on, the size of the body, neck builds, laminates, it goes on and on.
if you bash a tuning fork and place the bottom on different woods you will get the same pitch but different tones, I believe this to be the same with basses too.
I spent some time with Warwick, they are fanatical about the wood they use, the way its stored, dried and used.
I also agree about the neck wood comments, if you have a neck with a 3 or 5 part construction is there a credible difference to the tone or is it just the manufactures just showing off their craft? The latter I expect.
I'm sure a zero fret would add better open string sustain on a single piece graphite neck........., how I dream of a trace bass!!!