Several anthropic disturbances, including deforestation, fires, the building of roads and dams, have intensified in Amazon in last decades. These disturbances contribute to an increase in the occurrence and intensity of extreme events, such as more frequent floods and more severe droughts, due to climate change. Along the Amazonian rivers, aquatic herbaceous plants, mainly of the Poaceae family, are very abundant and produce up to three times more biomass than the adjacent flooded forests, and some are considered ecosystem engineers given their structuring role in these environments. Invasive grasses have spread through the Neotropics and are gradually entering the Amazon via the Arc of Deforestation. These invasive species often attain high coverage, suppress other species, and become dominant in both disturbed and pristine habitats. The aim of this study was to establish the current and future distribution patterns of two native ecosystem engineer species (Echinochloa polystachya and Paspalum fasciculatum) and two invasive species (Urochloa brizantha and Urochloa decumbens) in the Amazon Basin. To predict the future climate, we used three scenarios, namely SSP1–2.6, SSP3–7.0 and SSP5–8.5 for the years 2040, 2080 and 2100, to project climatically suitable areas. The current climatically suitable range for the native ecosystem engineer species was estimated at 33–35% of the Amazon Basin, while the invasive ones have a range of 53–84% in potential climatically suitable areas. A decrease in the areas of suitability of the two ecosystem engineer species, E. polystachya and P. fasciculatum, was observed in all scenarios and years, while only the invasive U. brizantha showed an increase in suitable areas in all years. These results raise concerns about the invasion of grasses with high aggressive potential that could result in the exclusion of native ecosystem engineer species and their ecological roles.