ABSTRACTThe epithermal Zn–Pb (Cu–Ag) deposit of Santa Maria represents a distal magmatic‐hydrothermal system, whose mineralizations are controlled by fault systems located in the sedimentary units of the upper Camaquã Basin, above the tectonic units of the Sul‐Riograndense Shield. The hydrothermal alteration zones contain illite, chlorite and pyrite, besides galena, sphalerite, chalcopyrite and bornite. To improve the knowledge of this mineral system, this work investigated the petrophysical footprints of samples representing the predominant lithology, altered rocks and hydrothermal mineralization. The core samples of the predominant lithology, altered rocks and hydrothermal deposit mineralizations were used to determine the following petrophysical properties, density, magnetic susceptibility, primary wave velocity, resistivity, conductivity and chargeability. Moreover, the quantitative evaluation of minerals by scanning electron microscopy coupled with an automated image analysis system allowed us to map lithological and alteration processes. The results indicate density as the most effective physical property to map lithology, hydrothermal alteration and the Zn–Pb (Cu–Au) mineralization. Furthermore, all studied physical properties have moderate effectiveness in the alteration zones of known geological and geophysical anomalies in the Santa Maria deposit. Chargeability could be used, especially when sulphides are disseminated, but additional geological factors complicate its interpretation. The mineralogical and petrophysical diversity of the Santa Maria deposit provided vital data for geological–geophysical interpretations while allowing the creation of a key exploration plan to investigate the Zn–Pb (Cu–Au) mineralization. Finally, petrophysics should be used in prospection to help understand complex geological processes, their overlapping subpopulations and to accelerate mineral research while reducing the use of technical and financial resources and expenditure on ineffective geophysical methodologies.