The northern Flinders Ranges region is underlain by rocks predominantly belonging to two contrasting geological provinces: the metamorphic and igneous Palaeoproterozoic to Mesoproterozoic Mount Painter and Mount Babbage Inliers, and the sediments of the Neoproterozoic to Cambrian Adelaide Geosyncline. Each geological province has its own distinct suite of mineral deposits and corresponding mineral prospectivity. The region displays a unique coincidence of abundant mineralisation (and therefore high mineral prospectivity), unusual rocks of value for research into the geological and mineralisation history of the State, and high environmental sensitivity and scenic and tourism interest. As part of a study aimed at refining the management of these frequently conflicting values, a comprehensive and scientifically-based assessment of the mineral prospectivity for a range of commodities was carried out. A knowledge-driven, index overlay methodology of GIS analysis was applied to the contents of mature geological and mineral deposit databases compiled by PIRSA over many years. Geoprocessing was performed in the ArcGIS Model Builder environment which allowed the process to be automated and easily updated with new information or processing steps. Maps of predicted prospectivity for each commodity, and for all commodities combined, were generated. The study has confirmed and, importantly, spatially delineated the high level of mineral prospectivity of the northern Flinders Ranges, particularly for copper and base metals in the Adelaide Geosyncline, and for uranium and rare earths in the Mount Painter and Mount Babbage Inliers. Statistical and visual analyses confirmed the robustness of the predictive methods used, as spatial comparisons of predicted mineral prospectivity with known mineral occurrences and geochemical assay results showed a high level of correlation. This data analytical process has also highlighted anomalies which require follow-up to ground-truth their prospectivity, which could then possibly lead to discoveries of new mineral deposits or evidence of previously unrecognised mineralisation styles. For instance, radiometric data obtained over the Adelaide Geosyncline metasediments indicate elevated levels of uranium which are unexpected and require investigation. A complementary and novel GIS analysis of exploration activity and geoscientific values added to the documentation of the region's importance to the economic and research sectors. This undertaking utilised a work flow and range of GIS procedures which are adaptable to modelling mineral prospectivity in other regions in South Australia and beyond, albeit with differing geology, mineral occurrences and styles, degree of exposure and level of knowledge.