I tend to tune the A slightly flat if anything...even perfectly intonated it's slightly sharp around the 5th to 10th on both my guitars. Also it seems to help tuning the top E, A and D to the frets 'in the middle' for me because that's where I play most! (btw can you tell I've got a night off? 3 forum posts in one night, shocker!!)
Tuning to a most-used open chord is useful too without a Buzz'd guitar. And tuning the G slightly flat works for most things. And the low E slightly flat sometimes so you don't 'hit it sharp'. Sh!t I'm in Peterson mode, ha!