Originally Posted by tinyu
disable half your mods if the problem is fixed then the problem is with that half log out disable your addons and login with half of the problem half keep doing this till you find the culprit.
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I'm not sure the group he's running with would like him doing that while fighting the end boss of the instance.
As for which mod it is, I'd have to agree with Dridzt in that it's the Action Bar mod which leads you back to your original gut feeling that it would be CT_BarMod or CT_BottomBar.
I also read something a week or two ago on the WoW UI & Macro forum about Pitbull4 blocking that extra button as well. You don't use Pitbull4, but what I'm getting at is that it might also be your CT_UnitFrames causing the issue (assuming what I had read was correct).