Personally, I like the difference between strings. More tonal options.
My main bass has a low F#, and believe you me, the B on that string sounds different than the open B, and the E played on the 10th fret sounds nothing like an open E. The difference in tone lets me, in a way, control the amount of bass frequencies I send out front...kind of like deciding whether I just want to play a certain note, or provide chest-thumping, foot-vibrating thump behind the note.
For me, that difference in sound is another musical tool to be used, not something I seek to eliminate.
Just my opinion, of course.