This paper presents a supervisory system that considers converter efficiency for local microgrids of commercial buildings to solve the uncertainty problem of the sources and loads while also optimizing local microgrid operating costs and maintaining power supply quality for commercial buildings. The supervisory system includes an energy management layer and a power management layer. In the energy management layer, a long-term optimization approach is used to reduce the operating costs by considering the dynamic converter efficiency. In the power management layer, a real-time power optimization method is structured to deal with the uncertainty problem of the sources and loads, and to ensure that the direct current bus power is balanced while also guaranteeing the power quality by considering the dynamic converter efficiency. Four cases are proposed for the supervisory system, and these cases are simulated in MATLAB/Simulink under three typical weather conditions: cloud, sunshine, and rain. The comparison of simulation results for cases 1 and 2 illustrates the impact of converter efficiency on energy coordination in microgrids. The simulation results of cases 3 and 4 verify that the performance—in terms of the power supply quality and the operating costs—of the proposed microgrid supervisory system considering dynamic converter efficiency outperforms that of the microgrid supervisory system considering fixed converter efficiency.