With gnome-do docky I would drop icons on desktop and drag them from there - however, the bug with icons means that with docky it works better to start the apps and then pin them.
Many apps (like Miro, picasa (usually a Wine icon - it would be nice to be able to modify this to find an icon in the .docky folder first, then maybe pixmaps, before going into the theme) appear normally in tray (stalonetray) and gnome-do docky, but not in the new version.
With gnome-do docky I would drop icons on desktop and drag them from there - however, the bug with icons means that with docky it works better to start the apps and then pin them.
Many apps (like Miro, picasa (usually a Wine icon - it would be nice to be able to modify this to find an icon in the .docky folder first, then maybe pixmaps, before going into the theme) appear normally in tray (stalonetray) and gnome-do docky, but not in the new version.