In this paper, we discuss the new North Cebu Archaeological Project, an intensive interdisciplinary research program in northern Cebu, Philippines launched by the University of San Carlos, Cebu (sponsored by the National Museum of the Philippines and the Aboitiz Foundation). The project focuses on discovery of archaeological sites and landscapes through intensive-informant survey, excavation of key sites, and collaboration with European partners at the aDNA laboratory at Jakobsson Lab of Uppsala University and with the Pantropocene project at Max Planck Institute in Jena, DE, at the Australian National University, School of Culture, History & Language, and the Archaeological Studies Program at the University of the Philippines, Diliman. Both Eu-funded projects are investigating the Philippine region, one examining migration through the analysis of ancient DNA, and the other “will study the degree to which combined pre-colonial and colonial impacts on tropical forests across the bounds of the former Spanish Empire, particularly across the understudied region of the Philippine Archipelago, initiated changes to climate, geomorphology, and the atmosphere and whether such feedbacks represent the origins of a pre-industrial 'Anthropocene' (https://www.shh.mpg.de/1489404/pantropocene-group). The collaboration of these partners considerably expands the reach of the North Cebu Archaeology Project to provide data for regional environmental investigations including microfossil studies of soil cores from near Daanbantayan, Cebu, and DNA and AMS dating from several dozen ancient burials at the San Remigio site, Cebu. Other partners in this long-range program include the Department of Anthropology, UCLA, Partido State University in Bicol, Philippines, the Governor of Cebu Provincial Tourism Office, and the National Commission on Culture and the Arts, Philippines.