You can upgrade from any version of File Reporter 3.0.x or greater by installing the updated software on top of the existing software. In environments where Active Directory is the Primary identity system, there are new optional file content scanning components to be installed. These include The RabbitMQ messaging broker, ManagerFC and AgentFC.
If you are upgrading from File Reporter 2.x, you will first need to upgrade to version 3.0. See the documentation at: https://www.novell.com/documentation/filereporter3/file_reporter_3_0_install/data/overview.html. After completing the upgrade to 3.0 you can then follow the instructions here for upgrading to File Reporter 3.6.