The Murotomisaki Gabbroic Intrusion is a sill-like layered gabbro emplaced in sedimentary strata of Tertiary age in southwest Japan. The zoning (including resorption structures) and the compositional variations of plagioclase from throughout the intrusion were studied, and it was found that the zoning pattern may be classified into four types, which may well correlated with the hosting rock types, the mode of occurrences and their stratigraphic positions in the intrusion. The plagioclase zoning was successfully decoded, and the sequence of events that took place during the magmatic differentiation was deduced and further interpreted in the context of a stratified basal boundary layer slowly ascending in a solidifying magma body. It was shown that various layered structures – modal layering, podiform gabbroic pegmatites and anorthositic layers – observed in the Murotomisaki Gabbro were formed within the moving basal boundary layer by flushing of H2O-rich fluid and fractionated silicate melts from below. By the fluxing of hydrous fluids, plagioclase crystals preferentially dissolved and then melt fraction increased in the basal boundary layer. Under these circumstances, plagioclase-rich fractionated melts diapirically segregated from the crystal pile. Calcic plagioclases, which are out of equilibrium in the central part of the intrusion, may have originated from the basal boundary layer in this manner.