I was having this problem in 13.04 final release (fresh install). I googled and found this, from http://askubuntu.com/questions/244603/how- to-keep-pidgin-libnotify-not-blacklisted-from-messaging-menu :
Here is what I found out... If you open Pidgin > Tools > plugins, make sure that "libnotify popups 0.14" is checked. Unchecking it removes pidgin from the mesaging menu. If you want to stop the popups then configure the plugin by highlighting the plugin and clicking "configure plugin" then uncheck the boxes by the popups you don't want. See also http://bugs.launchpad.net/ubuntu/+source/pidgin- libnotify/+bug/480030 , which seems to be the same issue in Ubuntu 9.10. -- You received this bug notification because you are a member of Desktop Packages, which is subscribed to pidgin in Ubuntu. https://bugs.launchpad.net/bugs/1076815 Title: Pidgin not in messaging menu Status in “pidgin” package in Ubuntu: Confirmed Bug description: There is no pidgin in the messaging menu, only gwibber and unity-mail shows. ProblemType: Bug DistroRelease: Ubuntu 13.04 Package: pidgin 1:2.10.6-0ubuntu2 ProcVersionSignature: Ubuntu 3.5.0-17.28-generic 3.5.5 Uname: Linux 3.5.0-17-generic i686 ApportVersion: 2.6.2-0ubuntu2 Architecture: i386 Date: Fri Nov 9 00:34:10 2012 InstallationDate: Installed on 2012-11-08 (0 days ago) InstallationMedia: Ubuntu 13.04 "Raring Ringtail" - Alpha i386 (20121108.2) MarkForUpload: True SourcePackage: pidgin UpgradeStatus: No upgrade log present (probably fresh install) To manage notifications about this bug go to: https://bugs.launchpad.net/ubuntu/+source/pidgin/+bug/1076815/+subscriptions -- Mailing list: https://launchpad.net/~desktop-packages Post to : desktop-packages@lists.launchpad.net Unsubscribe : https://launchpad.net/~desktop-packages More help : https://help.launchpad.net/ListHelp