The use of autonomous vehicles for marine and submarine work has risen considerably in the last decade. Developing new monitoring systems, navigation and communications technologies allows a wide range of operational possibilities. Autonomous Underwater Vehicles (AUVs) are being used in offshore missions and applications with some innovative purposes by using sustainable and green energy sources. This paper considers an AUV that uses a hydrogen fuel cell, achieving zero emissions. This paper analyses the life cycle cost of the UAV and compares it with a UAV powered by conventional energy. The EN 60300-3-3 guidelines have been employed to develop the cost models. The output results show estimations for the net present value under different scenarios and financial strategies. The study has been completed with the discount rate sensibility analysis in terms of financial viability.