Not a bamf issue: the problem is in the distro script that generates the file 
/usr/share/applications/bamf.index, when building it it does not take care of 
the .desktop file sections, so the empathy.desktop file that contains:
…
Exec=empathy
…

[Desktop Action Hidden]
Name=Open Hidden in Background
Exec=empathy -h
NotShowIn=Messaging Menu

[Desktop Action Prefs]
Name=Open Preferences
Exec=empathy -p
NotShowIn=Messaging Menu

[Desktop Action Accounts]
Name=Open Accounts
Exec=gnome-control-center credentials
NotShowIn=Messaging Menu

Would cause the script to generate a bamf.index like:

empathy.desktop empathy
empathy.desktop empathy -h
empathy.desktop empathy -p
empathy.desktop gnome-control-center credentials

And this last line confuses  the bamf matching. So, to fix this the
bamf.index generator script should avoid the exec strings defined into
.desktop sections.

** Changed in: bamf (Ubuntu)
       Status: Confirmed => Invalid

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https://bugs.launchpad.net/bugs/1045223

Title:
  When UOA g-c-c panel is loaded, the launcher icon gets associated with
  empathy

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