Abstract We present a study on the depth to basement and magnetic crustal domains beneath the Iranian Plateau by modeling aeromagnetic and gravity data. First, field processing of the aeromagnetic data was undertaken to estimate the general characteristics of the magnetic basement. Afterwards, inverse modeling of aeromagnetic data was carried out to estimate the depth to basement. The obtained model of basement was refined using combined gravity and magnetic forward modeling. Hereby, we were able to distinguish different magnetic domains in the uppermost crust (10–20 km depths) influencing the medium to long wavelength trends of the magnetic anomalies. Magnetic basement mapping shows that prominent shallow magnetic features are furthermore located in the volcanic areas, e.g. the Urumieh Dokhtar Magmatic Assemblage. The presence of ophiolite outcrops in SE Iran implies that shallow oceanic crust (with high magnetization) is the main source of one of the biggest magnetic anomalies in entire Iran area located north of the Makran.