The Joint European Torus (JET) Active Gas Handling System (AGHS) is a complex interconnection of numerous subsystems. While individual subsystems were assessed for their risk of operation, an assessment of the effects of inadvertent interconnections was needed. A systematic method to document the assessment was devised to ease the assessment of complex plant and was applied to the AGHS. The methodology, application to AGHS, the four critical issues and required plant modifications as a result of this assessment are briefly discussed.