Comment 3 for bug 1131385

Also the fix for this will be in unity/unity-shared/PluignAdapter.cpp. Where we tell if a window is on top. What is happening, is we skip always on top windows and if all the other windows are minimized it will return false.

Also look in unity/launcher/ApplicationLauncherIcon.cpp::ActivateLauncherIcon as this function is what calls:

 if (!any_on_top && wm.IsWindowOnTop(xid))

Which is what you will be checking to see if its false or true.