Background value of geochemical elements is an important geochemical index for regional prospecting prediction. The Gangdese-Himalayan orogenic system in Xizang was selected to collate and clean the regional geochemical data. The outliers were iterated using the mean value (X) plus and minus three times standard deviation (S) as the threshold value, and the median (m) of the remaining data was calculated to find out the background values and enrichment characteristics of 39 elements in different secondary units, then the prospecting prediction was made. The results show that the geochemical background of 39 elements of Gangdese-Himalaya in Xizang is highly varied and differentially enriched. Metallogenic elements such as Li, Be, Sn, W, Au, Sb, Pb and Zn are enriched in the Himalayan terrane, while Au and Cr are mainly enriched in the Yarlung Zangbo River suture zone. The Ladakh-Gangdese-Chayu arc basin system is enriched with Cu, Mo, Pb, Zn, Au, Ag and other ore-forming elements, and the enrichment degree increases gradually from north to south. The comprehensive analysis shows that the different tectonic-magmatic evolution processes of different tectonic units lead to the differential enrichment of elements, and then develop different types of mineralization. On this basis, according to the combination characteristics of elements, 7 prospecting prospects of class Ⅰ, 9 prospecting prospects of class Ⅱ and 17 prospecting prospects of class Ⅲ are delineated. The results of the study have certain guiding significance for the new round of prospecting strategy breakthrough action.