Geochemical background is the basis of anomaly evaluation in mineral exploration and environmental investigation. However, the background value obtained from secondary media is inevitably affected by weathering, transportation, and sorting, which leads to secondary depletion or enrichment of chemical elements. This problem can be avoided by the geochemical mapping of the exposed crust. In this paper, more than 38,000 samples of rocks data were collected, and an original method was presented for the first time to produce the cobalt geochemical map of exposed crust across the whole of China. Using a geological map grid of 1:200,000 as the basic calculation unit, the area and content of rock types in each unit were calculated, and then the grid was assigned using the area-weighted average method. Based on this, an geochemical contour map was drawn in ArcGIS. The results show that the median of the exposed crust is 9.74 mg/kg, which is lower than that of the whole crust and soils. This value is explained by the vertical heterogeneity of the crust and the secondary enrichment, respectively. Co anomalies and anomalous centers of exposed crust are distributed in southwest, north, and northwest China, where they are primarily related to Permian Emeishan Large Igneous Province (ELIP), Pacific plate, and the big mantle wedge (BMW), Archean metamorphic basic rocks, and ophiolite belts.