Comment 3 for bug 1392563

If Haguichi is set to start in tray (via "Edit" -> "Preferences" -> "Start Haguichi minimized in the notification area") while you don't have any tray, you should normally still be able to bring it up by activating the launcher again (or executing "haguichi" in an other terminal window/tab). The new Haguichi instance will ask the running instance to show it's window and then exits (by using "haguichi -d" in the terminal you will see the message "There is already an active session, will try to show it and close this session").

It could possibly be that your Gnome Shell thinks to be smart and always blocks launching new instances, then it might only work from terminal. On my own machine though, running Ubuntu GNOME (gnome-shell 3.10.4) and don't have this problem. But I wouldn't be surprised if they started doing something like that in 3.12 or 3.14.