The relationship between parallel and oblique to the orogen faults and the magmatic evolution is key to understanding the evolution of a hot orogen, such as the Central Andes. The Andean orogenesis along the southern Central Andes, during the Neogene is characterized by regional compression and magmatic processes associated with subduction. The outcome of this dynamic interaction between plate tectonics and magmatism has generated reverse, normal and strike-slip faults, both parallel and oblique to the trench. Despite the progress made on studying these fault systems, both their relationship with the stress field and their role in magma propagation into the shallow crust are still enigmatic. In this work, geomorphological observations are coupled with kinematic and dynamic analyses, as well as with kinematic forward modeling, to reconstruct the evolution of two main faults affecting the western slope of the Puna plateau, the Barrancas Blancas fault and the Tocomar fault, during the Neogene. The obtained data reveal that, between 17 and 10 Ma, the Barrancas Blancas fault had reverse activity, while the Tocomar fault had left-lateral strike-slip movement. At 10 Ma, the area was affected by the coeval reactivation of the Volcan de Punta Negra fault and the right-lateral activity of the Tocomar fault. During the last stage, strike-slip movement along the Tocomar fault favored the rise of magma, while the hydrothermal activity evolved along the Barrancas Blancas fault. The study results reveal that the oblique-to-the-orogen faults play a role in the segmentation of the reverse parallel-to-the-trench deformation and control the position of the volcanic centers, while the parallel-to-the-orogen faults control the relief development and the evolution of hydrothermal systems. The proposed model helps in understanding how magma rises to the surface associated with movement along reverse and strike-slip faults during the thickening of the crust.