An　energy　management　strategy　for　hybrid　generation　system　with　fuel　cell　and　super-capacitor　is　presented.　The　control　strategy　of　bidirectional　and　unidirectional　DC/DC　converters　is　designed　based　on　the　topology　analysis.　According　to　the　differential　flatness　theory,　the　way　to　plan　the　dynamic　trajectory　of　DC-bus　capacitor　energy　based　on　the　super-capacitor　current　is　explained,　which　realizes　the　fast　load　following　while　alleviates　the　transient　current　of　super-capacitor.　The　fuzzy　control　law　of　fuel　cell　is　proposed,　according　to　the　working　conditions　of　both　fuel　cell　and　super-capacitor,　which　adjusts　the　output　of　fuel　cell　to　meet　the　load　demand　while　maintains　the　reference　energy　storage　of　super-capacitor.　The　current　saturation　equations　of　super-capacitor　and　fuel　cell　are　introduced　to　ensure　the　safe　operation　and　lifetime　of　generation　system.　Simulative　analysis　verifies　the　correctness　of　the　proposed　energy　management　strategy　and　shows　the　load　power　regulation　by　generation　system.