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Buddleja (butterfly bush) is a genus of common landscape plants in temperate and subtropical gardens. Substantial breeding has led to a wealth of diverse cultivars with varied pedigrees. Molecular markers would be useful tools for breeders and others studying butterfly bush to identify cultivars. We evaluated SSR markers developed in Buddleja to fingerprint 11 cultivars to determine whether they were useful in cultivar identification. Markers Bud_03, Bud_10, and Bud_13 were polymorphic across all genotypes in the study and capable of accurate cultivar identification. These markers may be useful to breeders for intellectual property protection and to identify cultivars in instances of mislabeling.