It looks like a bug. Both /etc/xdg/autostart/beagled-autostart.desktop and /etc/xdg/autostart/beagled.desktop has Exec=beagled which probably is wrong.
** Changed in: beagle (Ubuntu)
Status: Unconfirmed => Confirmed
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beagled has two instances in the Gnome Session
https://launchpad.net/bugs/78432
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