As endangered species recover, studies of relatedness within and among populations are critical to evaluating genetic diversity, dispersal, and population expansion. The recently downlisted Hawaiian Stilt (Ae‘o; Himantopus mexicanus knudseni) declined historically due to habitat loss, over-hunting, and predation by invasive mammals, among other threats. While they remain conservation reliant, populations are increasing overall due to habitat restoration and management of invasive predators. As populations grow, questions remain regarding population connectivity and relatedness of populations. Further, this species is known to exhibit breeding behaviors such as helpers-at-the-nest, incubation by more than two adults, and egg dumping, which may suggest extra-pair parentage. In this study we utilized reduced-representation sequencing and analysis of SNPs to examine relatedness within and among nearby populations on the island of Moloka‘i in the Hawaiian Islands, for comparison with behavioral observations. Results showed geographic clustering of family group nests within wetlands. Additionally, individuals that were visually observed incubating a nest were not identified as parents by the genetic analysis, suggesting potential helpers-at-the-nest. As many of the individuals in this population are color-banded and monitored regularly by local community residents, this study lays a foundation for further studies of behavior and genetic diversity in this recovering species.