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[LukeKendall <luke@xxxxxxxxxxx>]

I had a similar problem.
Thunderbird (3) has options to set the application to use to open links.  I had this set to the correct Firefox installed when I upgraded from 9.10 to 10.04.  It did not work: links (http or https) would not open.
IMO the bug is that there is more than one place to set the functionality for opening links: in this case, one place is in TB, and the other is via System>Settings>Preferred Applications.
In my case, at some distant time in the past I had set the Web Browser (and mail, too) to open a Custom path
(to an older firefox which I wouldn't expect to work under 10.04).
I think the correct solution would require a Gnome variant of TB to strip the ignored and deceptive configuration choice from TB, to be installed as the Ubuntu version.  Either that, or only use the system preference as a fallback to application-specific preferences.

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https://bugs.launchpad.net/bugs/663100

Title:
  Thunderbird starts Konqueror instead of Firefox when clicking to links
  in mails

Status in “thunderbird” package in Ubuntu:
  New

Bug description:
  Binary package hint: thunderbird

  After the upgrade from ubuntu 10.04 to 10.10 Thunderbird starts
  Konqueror instead of Firefox when I click to a link in an email. I
  can't find any solution to force starting firefox instead of
  konqueror.

  In the Gnome Settings (System --> Preferred Applications) is Firefox
  selected as default browser.

  ProblemType: Bug
  DistroRelease: Ubuntu 10.10
  Package: thunderbird 3.1.4+build2+nobinonly-0ubuntu3
  ProcVersionSignature: Ubuntu 2.6.35-22.34-generic 2.6.35.4
  Uname: Linux 2.6.35-22-generic i686
  NonfreeKernelModules: nvidia
  Architecture: i386
  Date: Tue Oct 19 07:09:46 2010
  InstallationMedia: Ubuntu 10.04 LTS "Lucid Lynx" - Release i386 (20100429)
  ProcEnviron:
   PATH=(custom, user)
   LANG=de_DE.utf8
   SHELL=/bin/bash
  SourcePackage: thunderbird

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