A control scheme is described to charge series-connected super capacitors for photovoltaic generation systems. Based on the features of the super capacitors charge, the control scheme consists of three modes, i.e., the constant current charge mode, the constant power charge mode, and the constant voltage charge mode. The shift of three modes can be realized by controlling the duty of IGBT in the Boost-Buck converter system. Meanwhile, the high voltage, which is more suitable for application, can be obtained. Compared with the normal charge method with series-connected current-limiting resistance and the charge method with the constant current charge mode and the constant voltage charge mode, the proposed charging control scheme can shorten the charging time and improve the usage of the electric power generated from the PV arrays. The advantage described above is verified by simulations.