Abstract The physical process of crystal-melt separation is responsible for the accumulation of small to very large volumes (>100 km3) of eruptible rhyolitic melt in the shallow crust. Granitic intrusions, although providing a terminal, time-integrated image of melt segregation processes, host an unmatched record of the physical properties controlling mechanisms and rates of interstitial melt extraction from a crystal-rich source. We applied mass balance calculations and thermodynamic modeling simulations to an extensive bulk rock geochemistry dataset (>150 samples) collected in a Permian upper-crustal granitoid intrusion of the Italian Southern Alps. Textural and geochemical evidence indicate that this intrusion constituted a single, zoned magma body, with a crystal-rich base and a thick (~2 km), high-silica cap (75–77 wt% SiO₂). The large compositional variability of the crystal-rich materials suggests variable degrees of melt extraction efficiency and corresponding terminal porosities. Specifically, the loosely bimodal distribution of porosity values (φ) indicates that at least two distinct melt segregation mechanisms were operating in this system, which produced both high (0.65–0.45) and low terminal porosities (0.45–0.25) in the crystal-rich, cumulate materials. Modeling of latent heat budget shows that coexistence of cumulate products with differing terminal porosity signature can be explained by melt segregation processes taking place at different depths across a thick, interconnected magmatic reservoir with an initial homogenous water content (~4 wt% H2O). Deep in the mush column, low water activities (aH₂O < 0.5) promoted thermal buffering of cooling magma at high crystallinities, enabling residual melt extraction by percolation through a crystalline framework accompanied by compaction. Instead, at shallower depths, high water activities (aH₂O > 0.5) ensured prolonged magma residence at porosities that promoted crystal melt separation via hindered settling. Distinct melt extraction processes, acting synchronously but at different depths in vertically extensive silicic mush columns, can account for the large volumes of residual, haplogranitic melt mobilized during the relatively short lifespan of upper crustal magma reservoirs (~105 years).