You've already got the SE Compensator in the 2011, so IF it was installed properly, and is not faulty, you can discount that one.
I'm not sayin' this will fix your issue, but you might also look into putting something like Redline Shockproof transmission fluid in the tranny...it helps quieten things down a bit, plus it shifts better...mainly it is a great product specifically made for the transmission. You can read a million things on this site about lubricants, but the consensus of opinion is that Syn 3 is not the best thing to use, particularly in the Tranny. The short list would be:
1) Mobil 1 VTwin 20w50 (generally cheaper and more readily available, at Wal Mart or Autozone), Redline 20w50, Amsoil 20w50...any of those are good to put in the crankcase.
2) Redline Shockproof, Belray, or Amsoil transmission oil. I'm partial to Redline...it's pink like Pepto Bismol (sp?) and clings to the gears like grease.
3) Primary is not as important, but Redline MTL (now called Primary Lubricant) is a good one. Some people use Automatic Transmission Fluid...or you can use the same oil as you put in the crankcase.
Whatever the case, if they say it is "normal", I'd ride the thing...perhaps as things wear in a bit more, the noise will go away.