I don't know what compatibility mode is and what enable and disable do for me.
FileWave 13.1 introduces a new method of certificate-based security for communication between components (client, booster, server and IVS). Only 13.1 and greater components are able to generate and properly use certificates to communicate with other components using the new method. Therefore, if your server is running 13.1 but you have components that are older than 13.1 they can not generate the needed certificates to have the highest level of security, and will not be able to communicate together.
Compatibility Mode Enabled
The server allows older clients, boosters, and IVS to communicate with the server with or without valid certificates
Compatibility Mode Disabled
The server will not allow any client, booster, or IVS to communicate with the server unless it has a valid and unique certificate. Boosters and clients are also checking peer certificates and will only communicate if the peer certificate is valid.
When you disable compatibility mode (uncheck the box in preferences) you will receive a warning of clients, boosters, and imaging appliances (AKA IVS), that may potentially be disconnected by you enabling this mode. If you get this warning, it is recommended that you cancel, and resolve the issue before compatibility mode is disabled.