If you were never 100% happy with the pickups and want to change them for that reason, I
entirely understand - they do make a huge difference and if you want to vintage it up /
beef it up / whatever then it a pickup change can make a big difference.
concern is if you WERE happy with your pickups until everything rusted up.... The thing
is that you now may have dodgy soldered joints / dirty pots / dirty jack connector. All
of these things (plus the cable) affect the sound of the pickups as they'll give the
signal a more difficult path. If you look here http://buildyourguitar.com/resources/lemme/
there's a great little
article on such things. Also the bit down the bottom about 'stratitis' - just wondering
if the pickups have now changed height a little whilst you've been investigating the
damage the damp has done?