The historical deforestation of the Upper Brahmaputra Valley in the Indian state of Assam has resulted in the transformation of its once-contiguous lowland rainforests into many isolated forest fragments that are still rich in species, including primates. We report the recent history and current status of six diurnal primates in one large (2,098 ha) and three small (<500 ha) fragments of the Upper Brahmaputra Valley. We censused primates in the small fragments during 2002, 2005, 2009, in the large fragment in 2008, and used other published census data to derive population trends. We also used key informant surveys to obtain historical occurrence data for these populations. Our analyses reveal the recent extinction of some populations and the simultaneous long-term persistence of others in these fragments over 16 years. Most populations appeared to have declined in the small fragments but primate abundance has increased significantly in the largest fragment over the last decade. Addressing the biomass needs of the local human populations, which appears to drive habitat degradation, and better protection of these forests, will be crucial in ensuring the future survival of this diverse and unique primate assemblage in the last rainforest fragments of the human-dominated Upper Brahmaputra Valley.