I've been having a couple of problems since the update to Ace3 with AllInOne setups. I'm using player/target/focus all in one using the player bar as the owner.
On my warrior if i track battleshout on the player, and demo shout on the target there is a stacking issue with the new timer bar. The battleshout displays as normal until i demo shout, which then replaces the battleshout timer completely (not overlapping) instead of stacking neatly. As the two timers count down, they randomly reappear in place of the other. When the demo shout timed out while it was displayed the battleshout timer does not reappear on it's own. Battleshout only reappears is when i gain another buff/debuff (even one that is not tracked actively by classtimer).
I'm having this problem as well. Changelog is showing last update as r78245.