Western Melanesia sits at the junction of three major tectonic plates, characterised by dynamic plate interactions and geological diversity. Tectonic activity in this region has given rise to modern New Guinea, a relatively young island with extreme topographic heterogeneity and evolutionarily complex biota. New Guinea—particularly the East Papuan Composite Terrane (EPCT)—supports exceptional frog diversity; however, evolutionary histories of many frogs of the EPCT are poorly understood. The microhylid frog genus Mantophryne currently includes five described species (M. axanthogaster, M. insignis, M. louisiadensis, M. menziesi and M. lateralis), with the first four confined to small portions of the EPCT and the last distributed across the eastern half of New Guinea. The biogeographic history of these frogs remained incompletely resolved at the time of our study. We estimate that Mantophryne diverged from other microhylid genera approximately 14.4 million years ago (MYA) and began to speciate ca. 8.5 MYA. We recover eight distinct lineages within frogs assigned to M. lateralis, which started to diverge ca. 5.5 MYA. Dispersal of Mantophryne out of the EPCT occurred in the late Pliocene, around the time the Central Highlands expanded eastward to connect with the EPCT. Six pairs of sister lineages arose during a time of significant climate reorganisation in the Late Pliocene – Early Pleistocene when it is possible that areas to the north of the Central Highlands experienced increased precipitation, while areas south of the Central Highlands experienced lower rainfall, resulting in contraction of rainforests and expansion of savannahs