In three-dimensional (3-D) implicit geological modeling, the bounding surfaces between geological units are automatically constructed from lithological contact data (position and orientation) and the location and orientation of potential faults. This approach was applied to conceptualize a karst aquifer in the Middle Triassic Muschelkalk Formation in southwest Germany, using digital elevation data, geological maps, borehole logs, and geological interpretation. Dip and strike measurements as well as soil-gas surveys of mantel-borne CO2 were conducted to verify the existence of an unmapped fault. Implicit geological modeling allowed the straightforward assessment of the geological framework and rapid updates with incoming data. Simultaneous 3-D visualizations of the sedimentary units, tectonic features, hydraulic heads, and tracer tests provided insights into the karst-system hydraulics and helped guide the formulation of the conceptual hydrogeological model. The 3-D geological model was automatically translated into a numerical single-continuum steady-state groundwater model that was calibrated to match measured hydraulic heads, spring discharge rates, and flow directions observed in tracer tests. This was possible only by introducing discrete karst conduits, which were implemented as high-conductivity features in the numerical model. The numerical groundwater flow model was applied to initially assess the risk from limestone quarrying to local water supply wells with the help of particle tracking.