But in a good way:-)
 
http://www.youtube.com/watch?v=V2xnXArjPts
 
 

Well Carly was a sharp girl...

yup... I have noticed those tendencies ... never really thought about intentionally tuning flat, because tuning dead on has worked well for me.  I do tune the B a bit flat ....
 
Next time I tune up I will certainly investigate this "alternate" tuning.....

Interesting stuff. I have always thought the G string sounded sharp when tuned  perfect. I'll probably listen to this again.
 
I thought to myself WHOA that's some post geriatric tuner you have there man until I realized there was a camera on his tuner.

Next you will be buying that guitar that has the bent frets as shown before.
http://www.truetemperament.com/site/index.php
 

I'll stick with the tuning that makes the guitar sound like all strings are in tune.
(up and down the fret board).
 

I'm anxious to try it with my Strobo-soft plug.  That way if I like it, I can save it as a preset.  Knowing how great a player and how meticulous James is I bet it works a treat.  I have always tuned my low E flat due to the exact reason he states.  Ever since I were a lad. 

For those not willing to watch the entire video, here is the tuning JT uses:
 
High E: -3 Cents
B: -6 Cents
G: -4 Cents
D: -8 Cents
A: -10 Cents
Low E: -12 Cents
 
Since this is mainly for two reasons: Because using a capo sharpens each string and the low E tends to ring sharp, I wonder if you should bring it a bit closer to dead on if you're not using a capo?  (Maybe just leave the A and low E a little flat?)

I think the fly was trying to tell him something.

After all, folks, being "in tune" is purely out of sink with nature. To me it's like having a rhythm perfectly quantized. It sounds too pure. Sterile. Mechanical. Void of character. There's simply no "human feel" to it.
 
So the balance is to be just off tune enough no one notices.

Why do I need to tune?  I play rawk!