The petrogenesis of Cenozoic alkaline magmas in the West Antarctic Rift System (WARS) remains controversial, with competing models highlighting the roles of decompression melting due to passive rifting, active plume upwelling in the asthenosphere, and flux melting of a lithospheric mantle metasomatized by subduction. In this study, seamounts sampled in the Terror Rift region of the Ross Sea provide the first geochemical information from submarine lavas in the Ross Embayment in order to evaluate melting models. Together with subaerial samples from Franklin Island, Beaufort Island, and Mt. Melbourne in Northern Victoria Land (NVL), these Ross Sea lavas exhibit ocean island basalt (OIB)-like trace element signatures and isotopic affinities for the C or FOZO mantle endmember. Major-oxide compositions are consistent with the presence of multiple recycled lithologies in the mantle source region(s), including pyroxenite and volatile-rich lithologies such as amphibole-bearing, metasomatized peridotite. We interpret these observations as evidence that ongoing tectonomagmatic activity in the WARS is facilitated by melting of subduction-modified mantle generated during 550–100 Ma subduction along the paleo-Pacific margin of Gondwana. Following ingrowth of radiogenic daughter isotopes in high-µ (U/Pb) domains, Cenozoic extension triggered decompression melting of easily fusible, hydrated metasomes. This multistage magma generation model attempts to reconcile geochemical observations with increasing geophysical evidence that the broad seismic low-velocity anomaly imaged beneath West Antarctica and most of the Southern Ocean may be in part a compositional structure inherited from previous active margin tectonics.