Abstract In the Central Southern Volcanic Zone (CSVZ) of the Andes, the location of stratovolcanoes and monogenetic small eruptive centers (SEC) is controlled by the Liquine-Ofqui Fault Zone (LOFZ), a trench-parallel strike-slip feature of over 1000 km length. The geochemistry of basalts from SEC is different from those of stratovolcanoes, and are termed Type 2 and Type 1 basalts, respectively. In the region of Villarrica stratovolcano, contemporaneous SEC are more MgO-rich, and have greater light rare earth element (LREE) enrichment, lower 87Sr/86Sr and 143Nd/144Nd, and lower ratios of large ion lithophile elements (LILE) to LREE and high field strength elements (HFSE). A unique finding in this region is that basalts from one SEC, San Jorge, has Type 1 character, similar to basalts from Villarrica stratovolcano. Type 1 basalts from Villarrica and San Jorge SEC have strong signals from time-sensitive tracers of subduction input, such as high 10Be/9Be and high (238U/230Th), while Type 2 SEC have low 10Be/9Be and (238U/230Th) near secular equilibrium. Based on new trace element, radiogenic isotope and mineral analyses, we propose that Type 1 basaltic magma erupted at San Jorge SEC and Villarrica stratovolcano forms by melting of the ambient actively subduction-modified asthenosphere, while Type 2 SEC incorporate melts of pyroxenite residing in the supra-subduction zone mantle lithosphere. This scenario is consistent with the close proximity of the volcanic features and their inferred depths of magma separation. The pyroxenite forms from arc magma produced during earlier episodes of subduction modification and magmatism, which extend back >300 Ma along this segment of the western South American margin. Type 2 basaltic magmas may reach the surface during LOFZ-related decompression events, and they may also be a normal but episodic part of the magma supply to large stratovolcanoes, resulting in cryptic geochemical variations over time. The presence and mobilization of stored and aged subduction-related pyroxenite in the mantle lithosphere complicates the identification of subducted, mantle and crustal inputs to magma erupted in continental arcs.