yes yes yes. i've had this exact same experience too.
my ds-2 sounds great through my marshall superbass and jcm 900, and it was nice through my brother's jcm 2000 tsl head. but it sounds crap and a million times thinner and more harsh through other amps, like (drumroll) a peavey transtube i used to have. also tried it through some guys ibanez toneblaster stack with similar sad results.
incidently, the ds-1 sounded crap through all my marshalls and anything else.
so anyways, this was a really long time ago and i only use rats now... they are harder to discolour with a bad amp. not impossible by any means however.