On PTR and now on live since 2.4, I seem to be having this issue where my primary buffs and debuffs don't always show up. I keep deleting my config lua and redoing my setup but it seems to come back. It kinda fixes itself if I reload my UI but then it'll break again later randomly.
It doesn't seem like a lot of other people are experiencing this so I'm probably just going to hope a random addon is messing up ebbs and try disabling stuff.
And yeah, I use WoWAceUpdater so everything is current.
I am having exactly the same problem.
I also posted a similar bug report here (im abc101):
so far no fix or reply. :/