This paper deals with a Z-source active power filter(Z-AFU) for mitigation voltage THD(total harmonic distortion) due to voltage harmonic propagation(amplification) in 6.6kv power distribution system. Bus voltage harmonic signal is detected by 60Hz butterworth BPF(band pass filter). As an ESS(energy storage system) of the proposed system, PEM fuel cells(Ballard NEXA, 1.2kw) is employed. Test results based on PSIM(power electronics simulation tool) validate the proposed approach.