The fuel processor for the portable fuel cell includes multi-step processes consisting of hydrogen generator, heat generator and several CO clean-up stages. One of requirements of the fuel processor for portable fuel cell system is a rapid start-up time. Especially, the warm-up time for WGS reactor is crucial factors for total start-up time. In this paper, active heating protocol, which is the heating protocol of WGS reactor supplied by the oxidation of CO rich reformate in the initial stage, is used for a rapid start-up. The air stream fed to the inlet of WGS reactor rapidly oxidize the CO rich reformate in the WGS reactor. Therefore, CO concentration in reformate quickly stabilized at the desired concentration without CO surges.