It's really best to play around with pickup heights. Usually when I get a new set I spend a couple weeks experimenting and tweaking to get them sounding just right.
The more you back them off the strings the greater dynamic range the pickup can produce and it tends to sound with softer attack, but too far and it will sound balls-less and wimpy, and the bass gets cut. The closer you move the pickup to the strings the louder and more compressed a pickup will get - too close can get both boomy and shrill. It's also important to focus on pickup balance . . . maybe you want the bridge to be a little hotter than the neck, or maybe you want them all sounding exactly the same volume. Sometimes there's a tonal tradeoff to get the balance you want.
For a general place to start - I usually set the neck pickup way too close to the strings, then back it off a little bit at a time until it doesn't sound boomy or shrill and I start to get good dynamics with it. Then I set the bridge pickup height to be a tiny bit louder in volume than the neck. Then I set the middle pickup to be a little bit weaker than the neck. Usually that gets me a workable sound, and I can tweak from there (adjusting individual poles to account for string balance if necessary).