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PAFID operations and activities are generously funded by grants received through partnership agreements with various development agencies. The following organizations and institutions have been supporting PAFID and providing critical assistance in its work with Indigenous Peoples.

MISEREOR, the social action arm of the Catholic church of Germany has supported PAFID since the early 90s' through regular grants to the National Land Tenure Program. In the past 14 years, funding from the MISEREOR has enabled the PAFID to continue with its field activities, conduct trainings, facilitate community mobilizations, undertake survey and delineation of ancestral domains, procure critical equipment, and support the administrative requirements of the organization.

The Biodiversity Support Program (BSP) provided the initial investment to which enabled the PAFID to secure its 1st set of mapping equipment. Through a modest grant from the BSP in 1994, the PAFID was able to secure Global Positioning System (GPS) equipment and embark on its maiden effort to map and delineate the extents of the ancestral domain of the Buhid Mangyan peoples and the Hanunuo Mangyan Peoples in the island of Mindoro in the southern part of the Philippines.

The UNDP-Small Grants Program has provided grants to support the Community-Based Biodiversity Conservation initiative of the Agta Peoples of Aurora Province and to the Manobo Peoples of Portulin, Bukidnon.

The CORDAID provides support for our Health and Literacy Project in South Central Bukidnon. For the past 2 years, CORDAID has been a very partner in sustaining PAFID activities in the delivery of basic health and literacy services for 11 Manobo communities in Bukidnon.

In partnership with the Foundation for the Philippine Environment (FPE), the PAFID has been able to conduct trainings on Community Mapping and Land Use Planning through 3D-Modelling. To date 6 NGO-partners of the FPE along with their Community/PO counterparts have been trained under the partnership.

The Katutubong Samahan sa Pilipinas (KASAPI) a national coalition of Indigenous Peoples has been a partner of the PAFID since its inception. PAFID continues to work hand-in-hand with the KASAPI in the field of Capacity Building and networking.