Re: SH-4 Or SH-6!? I can't decide!
Misalignment wouldn't really do anything to your sound if you're playing mostly through distortion. If the distance between the two E strings is greater than 2 inches, then you should go with trem spacing.
I have a JB in M series LTD (basswood/bolt on) and it sounds just awesome. Very full. But I have a JB in H series ESP (mahagony/set thru) and its good, just not as full as in the other guitar. And a little on the bright side. I know basswood is similar to alder so thought I'd let you know. The distortion didn't sound as organic to me as the JB, cause of the ceramic magnet, so I got rid of it. However, the JB is picky about guitars.