A filter auto-calibration system includes a multi-clock module. The multi-clock module includes a multi-clock generator that is configured to generate a clock signal with a variable frequency based on a channel setting. There is at least one filter to be calibrated. An auto-calibration control module is configured to control calibration of the at least one filter based on the channel setting. The multi-clock module is configured to supply the variable frequency clock signal to the at least one filter and to the auto-calibration control module, and the at least one filter is coupled to the auto-calibration control module.