I personally find lowering the bridge pup on most of my guitars helpful to get the tone I like. Higher = more output, more mids, more compressed and congested sounding. Lower = less output, less mids, more open and clear sounding. Obviously each pickup has a sweet spot for my preferences; I have a "too low" also. My buddy's Les Paul, on the other hand, has the bridge pup as high as he can get it without touching the strings, and I think it sounds great.
I should add, I've not been able to use pre-distortion EQ to compensate for a PUP too high for my tastes. There seems to be a character imparted to the tone due to height that is more than EQ.