Out of curiosity, in your system settings for agent initiated activation, do you have "reactivate unknown agents" enabled?  One issue I have seems to come when the clone prep parent gets activated.  When this happens I end up with duplicate computer errors.

I pushed a new image after resetting the agent on the parent and taking a new snapshot.  After some period of time the agent shows as offline, if I re-activate the VM it comes back online again.