This research applies Electrical Resistivity Tomography (ERT) and Time Domain Electromagnetic Method (TDEM) to study the hydrogeology of the Taubaté basin, which is characterized by half-grabens with about 850 m of maximum sediments thickness. The study area is in Taubaté city, São Paulo State, Brazil, where the Taubaté aquifer is an important water source. The Taubaté Group is the main sedimentary package of the basin; it is formed mainly by shales that form aquicludes, and thin layers of sandstones that form the aquifer. There are 40 groundwater exploration wells in Taubaté city that provide important information. The study purpose is to characterize the geoelectrical stratigraphy of the subsurface to locate the contact between the Quaternary and Tertiary sediments and to identify the Taubaté aquifer. The ERT is used for shallow investigations (tens of meters) and the TDEM can reach a great investigation depth (hundreds of meters). Therefore, these geophysical methods are complementary. The ERT data were acquired with the pole-dipole array with 20 m of electrodes spacing and 400 m length, and the TDEM data with the central-loop array with a 200 × 200 m transmitter loop. The results permit to define the contact between the Quaternary and Tertiary sediments around 15 m depth, the Pindamonhangaba Formation between 15 m and 30 m depth and the Taubate Group between 30 m and 300 m depth. The TDEM method defined the Taubaté Group as a single geoelectric layer because the shale and the sandstone layers are all very conductive. The basement is formed by gneiss, which is a very resistive rock. The TDEM method is not able to identify a high conductor/resistor contrast. Overall, the results are consistent with the known geology and the wells information.