This paper presents the braking energy regeneration control of a fuel cell hybrid electric bus. The configuration of the regenerative braking system based on a pneumatic braking system was proposed. To recapture the braking energy and improve the fuel economy, a control strategy coordinating the regenerative brake and the pneumatic brake was designed and applied in the FCHB. Brake safety was also guaranteed by the control strategy when the bus encounters critical driving situations. Fuel economy tests were carried out under China city bus typical driving cycle. And hardware-in-the-loop tests of the brake safety of the FCHB under proposed control strategy were also accomplished. Test results indicate that the present approach provides an improvement in fuel economy of the fuel cell hybrid electric bus and guarantees the brake safety in the meantime.