First off, if you don’t have Dconf Editor installed, do so by entering the following into a terminal:

sudo apt-get install dconf-tools

To open it, hit Alt+F2 and enter dconf-editor. Navigate to desktop > unity > panel, where the value for the systray-whitelist entry should look something like: ['JavaEmbeddedFrame', 'Mumble', 'Wine', 'Skype', 'hp-systray', 'scp-dbus-service']

You can manually add programs and indicators to it (eg: ['JavaEmbeddedFrame', 'Mumble', 'Wine', 'Skype', 'hp-systray', 'scp-dbus-service', 'your-indicator-here']), or you can just get it to show all notifications (which would be preferable, since any programs you install in the future would be included there).

Simply click the systray-whitelist entry and type ['all'] over what is there. That should restore all your usual system tray icons, which were always running, just not visible. To complete this, you will need to run (via Alt+F2) unity --replace to refresh Unity.

source

Enable Metacity Compositing in GNOME 2.22 | Tombuntu

Create /usr/share/applications/compiz.desktop containing the following:

Code:

[Desktop Entry]
Type=Application
Encoding=UTF-8
Name=Compiz
Exec=compiz ccp
NoDisplay=true
# name of loadable control center module
X-GNOME-WMSettingsModule=compiz
# name we put on the WM spec check window
X-GNOME-WMName=Compiz

Load gconf-editor then browse within it to /desktop/gnome/session/required_components/ and change the windowmanager entry to compiz

Logout, log back in and that should fix it (it did for me) Provided of course that you have selected Emerald through the Fusion Icon at some point?

Arch Linux Forums / Novice in ArchLinux – Problems with Compiz-Fusion in Gnome.

((type=Menu | PopupMenu | DropdownMenu | Tooltip | Notification | Combo | Dnd | name=sun-awt-X11-XWindowPeer)) & !(name=sun-awt-X11-XFramePeer | name=sun-awt-X11-XDialogPeer)

set to 95

http://www.ubuntu1501.com/2007/12/transparencies-and-opacity-in-compiz.html