The present invention provides a system for identifying white spirit through three-dimensional fluorescence spectrum and a method thereof. The manual mode of prior art for identifying white spirit has problems of low efficiency, higher identification cost, accuracy affected by the subjective element of the identifier and the like. According to the invention, the name, odor type, manufacturing year, degree number and reference characteristic parameter of each reference white spirit are stored in the reference data base. Subsequently the fluorescence spectrum of the white spirit to be identified is measured and is prepared to a three-dimensional fluorescence spectrum. The comparison characteristic parameter is extracted. The reference characteristic parameter which is same or most approximate extracted comparison characteristic parameter is inquired in the reference data base, and then the name, odor type, manufacturing year, degree number and reference characteristic parameter are acquired. Then the similarity between the white spirit to be identified and the reference white spirit is calculated out according to the extracted comparison characteristic parameter and the acquired reference characteristic parameter. Finally the acquired name, odor type, manufacturing year, degree number and reference characteristic are outputted. The method of the invention can identify the white spirit with high efficiency, low cost, high accuracy and intelligentization.