I think uninstall seems like a good precaution. I have tried several times to reproduce the issue and have not been able to. Do you perhaps use some kind of software rollout system to install the packages?
The agent is a version that is constrained to connect only to the Duplicati Console (https://app.duplicati.com). It can then be managed through the console with no local UI.
It is still in a testing phase, and currently mostly intended for enterprise-style installations where many machines needs to managed from a central place.
We will announce the Agent setup in more detail later. Anyone who wants to try it out can contact support via the Duplicati website or write to hello@duplicati.com.
EDIT: See also a description of the package types.