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In this paper, modeling and analysis of active filter systems based on the generalized state space averaging method is presented. The non-linear equations of the system are converted to a linear state space model. A fast and reliable approximation of the system is achieved in this method. Long execution time, divergence problem, and huge produced files, which are difficulties associated with the conventional modeling techniques of active filter systems, are not present in the proposed method. In addition, the developed models can be used for the purpose of control and stability assessment. The method is applicable to different topologies and control techniques. In this paper, modeling and simulation results are presented for typical single-phase shunt, single-phase series, and three-phase shunt active filter systems. Experimental results are also provided for the verification of the proposed approach.