A 5kW class SOFC cogeneration system consisted of a hot box part, a cold BOP (balance of plant) part, and a hot water reservoir. The hot box part contained a stack, a fuel reformer, a catalytic combustor, and heat exchangers. A cold BOP part was composed of blowers, pumps, a water trap, and system control units. A 5kW stack was designed to integrate 2 sub-modules. In this paper, the 5kW class SOFC system was operated using 2 short stacks connected in parallel to test the sub-module and the system. A short stack had 15 cells with $15{ imes}15 cm^2$ area. When a natural gas was used, the total power was about 1.38 kW at 120A. Because the sub-modules were connected in parallel and current was loaded using a DC load, voltages of sub-modules were same and the currents were distributed according to the resistance of sub-modules. The voltage of the first stack was 11.46 V at 61A and the voltage of the second stack was 11.49V at 59A.