I’ll admit that, so far, I’m not a big fan of the 9.04 notification system. It does remind me a lot of OS X “Growl”, but the lack of customization options make it frustrating at times. I do hope that the developers continue to improve on the system as I think it could be a very nice tool given a little more attention.
In the meantime I have disabled Pidgin from using it. I don’t need every inbound IM and status change to be displayed for all to see.
Disable Pidgin Notifications
This “annoyance” can be easily fixed by disabling the libnotify plugin within the Pidgin plugins manager. To disable this system go to Tools > Plugins and untick the checkbox next to “Libnotify Popups”.
Also, if you’d prefer, you can try to customize the pop-up behavior by selecting the “Configure Plugin” button.
Hopefully being able to customize this or disable it altogether will make the new notification system livable until some improvements are made.