The Songjiashan Co-Fe deposit in the central part of the “Tongshan skylight” on the southeastern edge of the Zhongtiao Mountains is hosted by the volcanic-sedimentary rock series of the Paleoproterozoic Songjiashan Group. The spatial distribution of the orebodies is controlled by south-north trending rock units. Based on microscopic observations, the dominant ore minerals included magnetite, pyrite, chalcopyrite, carrollite, and linnaeite, while gangue minerals comprised quartz, calcite, sericite, and chlorite. Cobalt-iron ores had massive, banded, disseminated, and veinlet texture, and alteration of the host rocks included silicification, sericitization, pyritization, carbonation, and chloritization. Mineralization processes of the Songjiashan deposit were grouped into three periods: sedimentation, metamorphism, and hydrothermal. The Co concentrations in hydrothermal pyrite (Py-III) varied from 1.05 % to 3.75 %, with an average of 2.45 %. Cobalt in pyrite was homogeneously distributed and inversely correlated to Fe, indicating that Co isomorphically replaced Fe in pyrite. The characteristic Co/Ni ratio of pyrite varied greatly, ranging from 0.1 to 1000, reflecting various genetic types of sedimentation, metamorphism, and hydrothermal mineralization, with the main mineralization period primarily related to hydrothermal activities. Zircon U-Pb geochronology of the host rock and Re-Os isochron of Co-bearing pyrites indicate that Co mineralization mainly occurred at ∼2100 Ma. In-situ S isotopic analysis of sulfides reveals two peak δ34S values of 5–9 ‰ and 12–16 ‰. We interpret that the former value reflects the mixing of volcanic and marine sulfate sources, while the latter value is mainly artributted to marine sulfate sources. All δ34S values were lower than those of Proterozoic marine sulfates (15–20 ‰). Accordingly, we infer that thermochemical sulfate reduction plays a key role in marine sulfate reduction, and that the formation of Co-rich ore bodies in the Songjiashan deposit have undergone processes of initial sedimentation, metamorphism-deformation, and subsequent hydrothermal overprinting. Genetically, we suggest that the Songjiashan deposit belongs to a sedimentary-metamorphic hydrothermal superposition type Co-Fe deposit.