Originally Posted by Jazz Ad
You can also intonate differently for each string, based on the logic that strings aren't all used the same. Most people rarely play on B and E strings higher than the 12th fret.
Absolutely agree - I think the D string is generally the oddball of intonation. Something about the thickness and tension makes it need the saddle positions substantially differently than the others even with the action seemingly the same.
I personally intonate at 12th because
a) I play a lot in 10-16 range, even on B and E, and (b)small intonation discrepancies are not as apparent in the money fret range, imo.