The Tropical Andes Biodiversity Hotspot holds a remarkable amount of species at risk of extinction due to climate change and human activities. The Critically Endangered yellow-tailed woolly monkey (Lagothrix flavicauda), has experienced revisions in its known geographical range in recent years, along with a recent sighting in the region Junín, 206 kilometers south of previous observations. In this study, we used a generalized linear modelling approach across and beyond the species’ current range, incorporating ecological factors as predictor variables to species presence to estimate suitable habitat where the species may be living. The model incorporated 59 published localities and 517 randomly generated pseudoabsences. Precipitation most strongly predicted species presence in and our evaluation measures showed the model accuracy to be sufficiently accurate. Habitat suitability maps illustrate novel areas of potential corridors in central Huánuco and Pasco, though the latter region may be experiencing some degree of competitive exclusion with other primates. An analysis of the current protected area (PA) network in Perú revealed that around 80% of suitable habitat is unprotected from human development. Areas of suitable habitat should be surveyed to decrease bias in occurrence data, increasing the accuracy of habitat modelling for this species. Surveying these areas will also reveal corridors of gene flow between these populations, and could predict the best placement of PAs. Better characterization of the true distribution of the species will provide information to conservation practitioners in priority areas, helping to protect this species and associated threatened wildlife.