After Effect CS6 Version 11.0.4 (updated)
When I upgrade the Mac OS X to El Capitan (10.11)
After Effects CS6 Type tools and Text layer on timeline is not functional.
And can't be changed the text color and some more.
Are you using two monitors? I was having the same problems. Text would show up as a really long red text box with no text inside. Also when I would try to activate a menu in one of the panels, it would show up on the opposite monitor. I consolidated all the windows into one monitor. Problem solved (for now-- still testing)