At present, in order to alleviate environmental problems and energy crises, fuel cells are gradually being used in rail transit vehicle (RTV) drive systems. However, in the existing fuel cell drive systems, DC/DC converters are widely used, but there are serious shortcomings in terms of cost, efficiency and market application. To solve these problems, a novel dual-source drive system is innovatively presented in this study. In the dual-source drive system, the multi-mode operating state of the dual source motor was taken into consideration, and based on the independent vector control method (IVCM), the dual-source drive system was modelled and simulated to achieve the motor independent control between power output and power generation as well as the energy exchange between fuel cell and secondary power battery under any working conditions. In order to verify the effectiveness of the proposed dual source drive system, the electric drive performance test was carried out by the dual source system experimental verification platform. The result of this drive system topology is further improved compared with the same level of DC/DC drive system configuration used for this purpose.