Indigenous stewardship is essential to the conservation of biocultural diversity, yet conventional conservation models often treat Indigenous territories (ITs) as homogeneous or isolated units. We propose that archipelagos of Indigenous territories (AITs), clusters of ITs that span geographies but are connected through shared cultural or political ties maintained by Indigenous nations, are crucial for understanding and enhancing conservation strategies that recognize the complexity of Indigenous stewardship. We classified 3572 ITs in the Amazon into 4 categories-single or multiple nations with either singular IT or AIT-to assess their spatial heterogeneity, governance, and conservation potential. We then assessed species richness, carbon stocks, and pressures across these different categories. To examine how AITs can enhance biocultural conservation efforts, we conducted a case study of the Cofán Nation in Ecuador. AITs covered 45% of the Amazonian land area and had higher species richness and carbon stocks than single IT configurations. However, AITs faced greater pressures from development and extractive activities. In the case study, the Cofán AIT was shaped by colonization and land titling challenges, but their community-driven governance, cross-territorial collaboration, and adaptive responses-such as comanagement agreements and resisting extractive activities-enhanced their ecological and cultural resilience amid growing development pressures. Our findings suggest that AITs facilitate the exchange of resources, knowledge, and cultural practices, which strengthens social connectivity, reinforces governance structures, and enables adaptive management across ITs, thereby enhancing biocultural resilience across discontinuous spaces. This work advocates for a paradigm shift in conservation planning and practice that recognizes the vital role of AITs in sustaining Amazonian ecosystems and Indigenous lifeways, particularly in the face of increasing pressures.