Ubuntu 12.04
Compiz version : 1:0.9.7.6-0ubuntu1
Launch any LibreOffice application. The focus is on it. Then, call nautilus: the focus isn't on nautilus (no title nor menu bar on the top panel), and the launcher bar shows the focus arrow on the LibreOffice icon. You may open as many nautilus windows as you like, as long as you do it by the unity bar, the focus is lost between nautilus and LibreOffice (no title, window control or menu bar related to LibreOffice either, when you get to that situation, plus you cannot display the LibreOffice window again by clicking the icon since the bar thinks the window is already in focus: so focus seems kind of lost...)
Moreover, it appears that most of the time I close a LibreOffice window, the window disappears, but the focus arrow stays: no window anymore, no left arrow next to the icon, but remains the right arrow. However, this doesn't happen every time...
I can confirm this. Open LibreOffice Writer, then open Nautilus; focus is still on Libreoffice, no change in global menu bar. still Writer.