Habitats provide essential space for migratory birds to survive and reproduce. Identifying potential habitats in annual cycle stages and their influencing factors is indispensable for conservation along the flyway. In this study, we obtained satellite tracking of eight swan geese (Anser cygnoides) wintering at Poyang Lake (28°57′4.2″, 116°21′53.36″) from 2019 to 2020. Using the Maximum Entropy species distribution model, we investigated the potential habitats distribution of the swan geese during their migration cycle. We analyzed the relative contribution of various environmental factors to habitat suitability and conservation status for each potential habitat along the flyway. Our results show that the primary wintering grounds of swan geese are located in the middle and lower reaches of the Yangtze River. Stopover sites were widely distributed, mainly in the Bohai Rim, the middle reaches of the Yellow River, and the Northeast Plain, and extended westward to Inner Mongolia and Mongolia. Breeding grounds are mainly in Inner Mongolia and eastern Mongolia, while some are scattered in Mongolia’s central and western. The contribution rates of major environmental factors are different in breeding grounds, stopover sites, and wintering grounds. Breeding grounds were influenced by slope, elevation, and temperature. Slope, human footprint index, and temperature were the main factors that affected stopover sites. Wintering grounds were determined by land use, elevation, and precipitation. The conservation status of habitats is 9.6% for breeding grounds, 9.2% for wintering grounds, and 5.3% for stopover sites. Our findings thus provide a critically international assessment of potential habitats protection for geese species on the East Asian Flyway.