Apparently restarting your ubuntu after installing Skype solves the problem. Well, at least my Skype windows are now listed correctly as part of Skype Unity's icon and clicking the icon will browse through the windows instead of starting a new instance
-- You received this bug notification because you are a member of Ubuntu Bugs, which is subscribed to Ubuntu. https://bugs.launchpad.net/bugs/774477 Title: Skype launches new app through Unity when on system tray -- ubuntu-bugs mailing list ubuntu-bugs@lists.ubuntu.com https://lists.ubuntu.com/mailman/listinfo/ubuntu-bugs