A filter auto-calibration system comprises a multi-clock module that includes a multi-clock generator configured to generate a first variable frequency signal based on a channel setting, the multi-clock generator comprising a quadrature signal generator configured to generate an in-phase component and a quadrature component of the first variable frequency signal; and a mixer configured to generate an in-phase component and a quadrature component of a quadrature signal from a received signal other than the first variable frequency signal. The system also comprises at least one filter to be calibrated, and an auto-calibration control module coupled to the multi-clock module and the at least one filter, the auto-calibration control module configured to receive the in-phase component and quadrature component of the first variable frequency signal from the multi-clock module, and configured to control calibration of the at least one filter based on the channel setting.