During its mission, the SeaCat can either operate in an unsupervised and fully autonomous mode or supervisedly with an attached fibre-optic cable. The latter also allows for operating the SeaCat as a fully remotely controlled vehicle. As the link represents a 100 Mb/s Ethernet connection, a variety of sensors, including video, can be monitored in real time.

The SeaCat is optionally prepared to receive control commands from external software modules. This allows for a flexible development of more intelligent autonomous behaviour. Mission plans may be altered on the fly or objects detected by on-board target detection may be investigated in more detail.