Mapbiomas Indonesia also refers to secondary data and maps published by Government agencies and other institutions, which are reliable, legal, official, and publicly accessible. These provide essential reference materials for the analysis process and as our support for information disclosure. The following is a list of reference maps used by Mapbiomas Indonesia.
| Data | Year | Source | Institution |
| National Maritime Territory | 2021 | tanahair.indonesia.go.id | Ministry of Home Affairs |
| Coast Line | 2021 | tanahair.indonesia.go.id | Ministry of Home Affairs |
| Island Group | 2021 | tanahair.indonesia.go.id | Ministry of Home Affairs |
| Province | 2021 | tanahair.indonesia.go.id | Ministry of Home Affairs |
| District | 2021 | tanahair.indonesia.go.id | Ministry of Home Affairs |
| Sub-District | 2021 | tanahair.indonesia.go.id | Ministry of Home Affairs |
| Village | 2021 | tanahair.indonesia.go.id | Ministry of Home Affairs |
| New National Capital | 2023 | inarisk.bnpb.go.id | Nusantara Capital Authority |
| Forest Estate | 2022 | sigap.menlhk.go.id | Ministry of Environtment and Forestry |
| Conservation Area | 2022 | sigap.menlhk.go.id | Ministry of Environtment and Forestry |
| Watershed Area | 2018 | sigap.menlhk.go.id | Ministry of Environtment and Forestry |
| Forests & Peatland Permit Moratorium Area | 2022 | sigap.menlhk.go.id | Ministry of Environtment and Forestry |
| Peat Ecosystem Function | 2018 | sigap.menlhk.go.id | Ministry of Environtment and Forestry |
| Indigenous Forest (Officially Gazetted) | 2022 | sigap.menlhk.go.id | Ministry of Environtment and Forestry |
| Social Forestry Permit | 2022 | sigap.menlhk.go.id | Ministry of Environtment and Forestry |
| Community Timber Plantation | 2022 | sigap.menlhk.go.id | Ministry of Environtment and Forestry |
| Village Forest | 2022 | sigap.menlhk.go.id | Ministry of Environtment and Forestry |
| Community Forestry | 2022 | sigap.menlhk.go.id | Ministry of Environtment and Forestry |
| MoEF-Community Partnership | 2022 | sigap.menlhk.go.id | Ministry of Environtment and Forestry |
| Pulpwood Concession | 2022 | sigap.menlhk.go.id | Ministry of Environtment and Forestry |
| Logging Concession | 2022 | sigap.menlhk.go.id | Ministry of Environtment and Forestry |
| Mining Concession | 2022 | momi.minerba.esdm.go.id | Ministry of Energy and Mineral Resources |
| Oil Palm Concession | 2022 | 1. Ministry of Environtment and Forestry 2. Ministry of Agrarian and Spatial Planning/National Land Agency 3. Local Goverment |
