My setup has bipole speakers on the back wall, with the left one near a corner and the right still on the back wall but no side walls remotely near it. I used to have Audyssey 2EQ before upgrading to Audyssey XT32, and both versions of Audyssey set the level gain higher on the right surround by 3dB.
However, with Audssey 2EQ, it sounded ok, but a bit unmatched from both sides. With Audssey XT32, it sounds fantastic and evenly matched. So my results agree with what bfreedma is saying above, good room EQ helps quite a bit.
Where are you going to put your right surround by the way? On a stand?