In this paper, a parallel operation algorithm for high power PEMFC generation systems is proposed. According to increasing the capacity of fuel cell systems with several fuel cell stacks, the different dynamic characteristics of each fuel cell stack effect on imbalance of load sharing and current distribution, so that a robust parallel operation algorithm is desired. Therefore, a power-sharing technique is developed and explained in order to design an optimal distributed PEMFC generation system. In addition, an optimal controller design procedure for the proposed parallel operation algorithm is introduced, along with informative simulations and experimental results.