The invention relates to a manual field source frequency domain full-gradient electromagnetic measuring method. The method includes the steps that measuring lines and measuring points are arranged in a measuring area; a manual field source emits electromagnetic waves with different frequencies, and measurement of electromagnetic field signals corresponding to the emission frequencies of all the measuring points in the measuring area is completed through a measuring unit; electromagnetic field gradient signals of the related measuring points are obtained through difference; electromagnetic gradient information of underground media is inverted according to the measured electromagnetic field gradient signals, and accordingly an underground target body can be explored. Compared with the prior art, same noise signals in adjacent measuring point electric field signals are eliminated, the anti-jamming capability of collecting units is enhanced, the signal to noise ratio is improved, the requirement for emission power of the manual field source is lowered, the resolving power higher than that of an electric field is achieved, the boundary of a geologic body can be delineated, spatial distribution details of the geologic body are reflected, the sensitiveness to deep electrical property change is good, field measuring efficiency is improved, construction cost is lowered, and explanatory accuracy to geology abnormity is improved.