The present invention provides a natural electric field exploration method based on multi-channel natural electric field frequency-selecting instrument. The method comprises the steps of: measuring natural electric field frequency domain signals of a plurality of record points by employing the multi-channel natural electric field frequency-selecting instrument, after the first arranged natural electric field in a measurement area is completely measured, each record point where the measurement of the natural electric field has been completed is subjected to repeat measurement when each arrangement of the record points is subsequently measured until the measurement work of the natural electric field of all the record points in the measurement area is completed; and based on the detection data of a certain reference arranged record point, performing correction processing for the natural electric field frequency domain signals of all the record points of the whole measurement area so as toachieve daily variation correction of the natural electric field data of all the record points, reduce the random change influence of the natural electric field and improve the natural electric fieldexploration effect.