Hydroelectric dams are a major threat to rivers in the Amazon. They are known to decrease river connectivity, alter aquatic habitats, and emit greenhouse gases such as carbon dioxide and methane. Multiscale remotely sensed data can be used to assess and monitor hydroelectric dams over time. We analyzed the Sinop dam on the Teles Pires river from high spatial resolution satellite imagery to determine the extent of land cover inundated by its reservoir, and subsequent methane emissions from TROPOMI S-5P data. For two case study areas, we generated 3D reconstructions of important endemic fish habitats from unmanned aerial vehicle photographs. We found the reservoir flooded 189 km2 (low water) to 215 km2 (high water) beyond the extent of the Teles Pires river, with 13–30 m tall forest (131.4 Mg/ha average AGB) the predominant flooded class. We further found the reservoir to be a source of methane enhancement in the region. The 3D model showed the shallow habitat had high complexity important for ichthyofauna diversity. The distinctive habitats of rheophile fishes, and of the unique species assemblage found in the tributaries have been permanently modified following inundation. Lastly, we illustrate immersive visualization options for both the satellite imagery and 3D products.