A thorough understanding of the variation in total soil element concentrations is important especially in the Sub-Saharan Africa (SSA) soil contexts for agricultural and environmental management at large scale. Fingerprinting of soil elemental composition may form a useful basis for evaluating soils in a way that relates to soil-forming factors and inherent soil functional properties. The objectives of this paper are to quantify the proportion of variability in total elemental composition by total X-ray fluorescence (TXRF) method of 1074 soil samples from the Africa Soil Information Service (AfSIS) Project baseline and to determine the relationships with soil forming factors. The samples were from 34 sentinel sites measuring 10 × 10 km, randomized within major climate zones in SSA. Within each sentinel site there were sixteen spatially stratified 1 km2 clusters, within which there were ten 100 m2 plots. The within and between site patterns of variation in total element composition of 17 elements; Al, P, K, Ca, Ti, V, Cr, Mn, Fe, Ni, Cu, Zn, Ga, Sr, Y, Ta, and Pb, were explored. Total element concentration values were within the range reported globally for soil Cr, Mn, Zn, Ni, V, Sr, and Y and higher than reported range for Al, Cu, Ta, Pb, and Ga. There were significant variations (P 70% of variation in soil element composition patterns can be predicted using information in existing databases or readily observable features. Successful use of TXRF technique would open up possibilities for using total soil elemental composition fingerprints as a useful basis for characterizing soils in a way that relates to soil-forming factors and inherent soil functional properties