I see a couple things different: The thumb on the A is actually there, even though it doesn't sound like. Listen closely to the baseling go A, G, Bb and he'll move his thumb accordingly.

Relative to Capo:
e| 3
B| 1
G| 2
D| 0
A| 3
E| 2

e| Bb
B| Eb
G| C
D| F
A| Eb
E| A

This looks like what he's playing to me. I'm not sure though, I can't even really hear the guitar in this song.