The peak rises in Joshua Tree National Park, west of the Hexie Mountains, north of the San Bernardino Mountains and near Queen Valley. Malapai Hill is the product of the intrusion of magma into White Tank monzogranite, that cooled as basalt. The exact origin of the landform is not known: it might have been part of an older volcanic complex, or it might have never penetrated the surface but cooled underground and then became exposed as the somewhat softer granite around it was eroded over time. According to Argon dating techniques, the basalt of Malapai Hill is 15.93 ± 0.08 million years old.