New Pb isotope data are presented for Gede Volcanic Complex, Salak and Galunggung volcanoes in West Java, Merbabu and Merapi volcanoes in Central Java and Ijen Volcanic Complex in East Java of the Sunda arc, Indonesia. New O isotope data for Merbabu and new geochemical and radiogenic isotope data (Sr–Nd–Hf–Pb) for three West Javanese, upper crustal, Tertiary sedimentary rocks are also presented. The data are combined with published geochemical and isotopic data to constrain the relative importance of crustal assimilation and subducted input of crustal material in petrogenesis in Java. Also discussed are the significance of limestone assimilation in controlling the geochemical and isotopic characteristics of erupted Javanese rocks and the geochemical impact upon central and eastern Javanese arc rocks due to the subduction of Roo Rise between 105 and 109°E. The negative correlation between Pb isotopes and SiO2, combined with mantle-like δ18O values in Gede Volcanic Complex rocks, West Java, are most likely explained by assimilation of more isotopically-primitive arc rocks and/or ophiolitic crust known to outcrop in West Java. The negative Pb isotope-SiO2 trend cannot be explained by assimilation of the known compositions of the upper crustal rocks. A peak in δ18O whole-rock and mineral values in Central Javanese volcanic rocks (Merbabu and Merapi) combined with along-arc trends in Sr isotope ratios suggest that a different or additional crustal assimilant exerts control on the isotopic composition of Central Javanese volcanic rocks. This assimilant (likely carbonate material) is characterised by high δ18O and high Sr isotope ratio but is not particularly elevated in its Pb isotopic ratio. Once the effects of crustal assimilation are accounted for, strong East to West Java regional variations in Ba concentration, Ba/Hf ratio and Pb isotopic composition are evident. These differences are attributed to heterogeneity in the subducted source input component along the island: a more radiogenic Pb isotopic, lower Ba/Hf component (detrital-rich subducted sediment) in West Java and a less radiogenic Pb isotopic, high Ba/Hf component (attributed to a greater AOC/sediment fluid component and/or dominance of pelagic, clay-rich subducted sediment) in East and possible Central Java. The subduction of the Roo Rise, an area of oceanic basement relief, is thought to contribute significantly to the spatial geochemical source input variations exhibited by Javanese volcanoes.