Conservation of rare or threatened species requires a range of information, including a sound taxonomic foundation, to ensure appropriate management. However, rare species are often known from a limited number of specimens, and that can hinder taxonomic understanding. Seringia exastia and S. katatona are two conservation-listed taxa that were poorly known in the remote Kimberley region of northern Western Australia. Recent surveys discovered additional populations of both species but also revealed extensive morphological variation that obscured the boundary between the two species and a third, more widespread species, S. nephrosperma. We applied genomic data (>5000 SNP loci) to investigate species boundaries and hybridisation within this group. We found unequivocal evidence that S. katatona is a hybrid between S. exastia and S. nephrosperma, which is consistent with its intermediate morphology in diagnostic characters between the two highly divergent parents. Unexpectedly, we also uncovered a lack of genome-wide differentiation and polyphyly between S. exastia and an intended outgroup taxon, S. elliptica. These results have significant taxonomic implications, for which reason we present a revised taxonomic treatment that shows S. katatona to be a nothospecies, S. ×katatona, and synonymises S. elliptica under S. exastia, the oldest effectively published name. These taxonomic revisions present new information that will enable reconsideration of the current conservation status of these taxa and inform their management in northern Western Australia.