The Afar region is one of the only places on Earth where magmatic continental rifting and associated ongoing break-up processes are exposed onshore. The several active magmatic segments there are characterized by contrasted morphologies, crustal thicknesses, magma production rates, and magma-tectonic styles. In the Erta Ale Range rift segment, extension is magmatically accommodated, making the range the ideal place to study the magmatic behavior of a mature rift segment. Erta Ale Range comprises sub-segments with magma compositions ranging from basalts to rhyolites, but only the Erta Ale Volcano (EAV) sub-segment is active, where only basaltic compositions have been reported so far. Here, we show for the first time protracted differentiation at EAV that is not expressed volcanically at the surface, but is rather accessible via unique cognate gabbroic and microgabbroic blocks, and recorded by mixing with erupted basaltic magmas. These cognate samples record previously unknown mushy and evolved parts of the EAV plumbing system. To constrain their origin and evolution, we measured the major and trace element compositions of the bulk rocks, interstitial glasses, and melt inclusions. We also measured the oxygen isotopic compositions of olivine crystals, interstitial glasses, and melt inclusions. By combining these results with textural relationships and oxy-thermo-barometry calculations, we discuss magma differentiation and storage conditions, as well as magmatic interactions during transport through the crust. Comparison of our results with rhyolite-MELTS thermodynamic models highlights that protracted fractional crystallization is the main process of magma evolution, and when associated with reactive porous flow is capable of forming the evolved compositions observed (up to 75 wt.% SiO2). We also use the model outputs to quantify distinct steps of igneous differentiation in both shallow and deep crustal reservoirs, and we highlight significant interactions with hydrothermally altered wall rocks. We discuss this model within the geological contexts of the Erta Ale Range rift segment and the larger Afar region, and highlight contrasts with mature oceanic systems to argue that the region is not in the final stages of continental break-up.