Nishiyama volcano on Hachijojima Island is an active basaltic volcano located in the Izu–Bonin arc. In this study, petrological and geochemical analyses were conducted on mafic lavas and pyroclastics to understand the magma plumbing system and pre-eruption magmatic processes. Whole-rock major element compositions show significant variations (49.4–54.9 wt.% SiO2), and the samples contain variable amounts of plagioclase phenocrysts (1–40 vol.%). The whole-rock Sr, Nd, and Pb isotopic compositions of samples from the youngest volcanic stage (< 0.7 ka) are homogeneous, whereas some samples from the older stage (3–1 ka) have relatively low Pb isotopic ratios. This observation suggests that the younger magmas were derived from a single parental magma, but another parental magma with distinct geochemical features was involved in the magmatic system before 1 ka. The temporal variation in the FeO*/MgO ratios of the volcanic products is complex and is considered to reflect the intermittent injection of primitive magmas into the main magma chamber in which fractional crystallization occurred. Two-pyroxene geobarometry suggests that the main magma chamber was located at a depth of 9–12 km. The core region of some plagioclase phenocrysts consists of a glass inclusion-free inner core and an inclusion-rich outer mantle, suggesting that some plagioclase crystallized in the main magma chamber, which was followed by overgrowth during magma ascent because of increasing liquidus temperatures due to decompression-induced water exsolution from the melt. The whole-rock compositions of some eruption units with different Al2O3/MgO ratios exhibit distinct plagioclase-controlled trends, which negates the possibility that plagioclase accumulation occurred in a stable magma chamber. In addition, the density of plagioclase was higher than that of the melt during the magma ascent to the surface. From these observations, it is suggested that the accumulation of plagioclase phenocrysts occurred in ascending magmas as the plagioclase settled relative to the surrounding melt. The estimated depth of 9–12 km for the main magma chamber coincides with the depth range over which earthquake swarms occurred in 2002, suggesting that the magma chamber is still active, and that the earthquake swarms may reflect the injection of primitive magma into the magma chamber. Graphical Abstract