This paper deals with power quality improvement of a Z source inverter fed wind power generation system, using hybrid active power filter. The Z source inverter is used as power electronic interface for voltage and frequency control. However, it introduces higher order harmonics into the system, the use of non linear load also has inherent problem of poor power quality. To overcome the problems of harmonics and reactive power hybrid active power filter is introduced between system and load. The proposed wind power generation system is modeled in MATLAB / Simulink environment. Improved performance of the system after inclusion of hybrid active power filter is demonstrated through comparison on various indices like THD, reactive power compensation, power factor etc.