Bridge saddle adjustment -- string height vs. intonation

[oniman7]

I've got a couple basses I'll be setting up soon, and one I've already attempted. However, I've got a question that I can't seem to wrap my head around. When I raise or lower to the bridge saddle to adjust string height (or intonation) it affects the other. I know that in order to get proper intonation, I have to raise or lower the strings in the saddle so that they're at the right angle to be pressed at the proper angle depending on the fret -- right?

So, how do I adjust string height and intonation separately? At this point all of my strings are at different heights because I adjusted the intonation and each of them ended up being properly intonated at different heights.

[Lazarus.Bird]

You change your intonation by moving the saddle either closer to the neck or further away from it: http://www.tunemybass.com/bass_setup...ntonation.html

You change the saddle height to get the string height you want. You should also be matching your string height pattern to your fretboard radius: http://www.tunemybass.com/bass_setup...ng_height.html

[oniman7]

Oh. That suddenly makes a ton of sense. haha. Thanks.