Our study contributes to the ongoing dialogue on the impact of climate and habitat changes on migratory bird species, particularly focusing on how these effects vary based on species’ habitat preferences. We used citizen science data for 22 African-Eurasian migratory bird species and categorized them into five groups based on habitat preferences, following the classification methodology of Atkinson et al. (2014). Using ensemble species distribution modeling (SDM), we projected changes in potentially suitable habitats across Africa from 2040 to 2100 under contrasting climate and land use scenarios. Our results indicate a differential impact of climate and land use changes on habitat suitability, with species preferring habitats with shrubs and trees being the most vulnerable. Conversely, other group species, such as open country-grassland and farmland birds could experience a significant increase in suitable habitat. We anticipate a profound change in habitat suitability, with the western part of South Africa becoming unsuitable for most species, while an increase in suitable habitat is expected in the Sahel. Bioclimatic rather than land use variables emerged as the primary drivers of these changes. The extent of change in habitat suitability will be strongly influenced by the Shared Socio-economic Pathways followed by human societies.