Thunderbird uses gconf even when running in KDE.
For some reason when you tell Chrome to be your default Browser it misses out configuring gconf.
Fire up a shell and type:
gconftool-2 -g /desktop/gnome/url-handlers/http/command
You will see something like:
/usr/bin/firefox "%s"
To change this over to chrome type:
gconftool-2 --type string -s /desktop/gnome/url-handlers/http/command "google-chrome %s"
Restart Thunderbird. And now http(s) links should open in Chrome.
[Update]
TB > 4.x uses the xdg settings to determine the right thing to do.
Unfortunately on my Opensuse 12.1/KDE Box these seem not to be set by google-chrome.
I found the Solution here.
Aparently Google Chrome only sets the default browser for the "text/htm" Mime Type. Links seem to be clasefied "x-scheme-handler/http".
To fix this add the following line line to ~/.local/share/applications/mimeapps.list
x-scheme-handler/http=google-chrome.desktop
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