Determining the migratory status of seabird populations is crucial for addressing conservation concerns. The Roseate Tern Sterna dougallii is considered endangered in South Africa in view of its small breeding population and the threats to eggs and chicks. Earlier works based on capture-recapture data suggest that this population adopts a partial migratory strategy. Updated capture-recapture data were combined with new data on moult and stable isotopes of scapular feathers to determine whether subpopulations could be identified in the South African breeding population. Moult data on 404 individuals failed to identify subpopulations, but two groups were identifiable with the stable isotopes: one group of four individuals exhibiting low carbon and nitrogen stable isotope ratios and a second group (comprising the remaining 152 individuals) with significantly higher ratios. The isotope data suggest that birds from the two groups moulted in different areas. Comparisons with published studies showed that the 152 individuals had likely moulted their scapulars in South African waters, but the moulting area for the remaining four individuals could not be ascertained due to the absence of detailed isoscapes in the southern part of the Mozambique Channel. Further work investigating the genetic differentiation between South African and Madagascan Roseate Terns may bring new insight into the migratory behaviour of the South African population.