The genus Acanthosaura is characterized by a high level of cryptic species diversity and is subdivided into several species complexes. The phylogenetic relationships within the A. coronata complex remain unresolved due to the presence of cryptic lineages and limited molecular data for several species. In this study, these relationships are clarified using a molecular genetic analysis that integrates newly collected field samples and historical museum specimens with previously uncertain identification. Three mitochondrial genes (cyt b, COI, and ND2) from samples, including fresh collections of A. murphyi from Phu Yen Province (Vietnam) and museum specimens from Vietnam and Myanmar, were analyzed. In addition, morphological characters of the examined specimens with diagnostic traits of known species were compared. Phylogenetic analyses confirmed the distinct species status of A. murphyi and enabled the taxonomic reassignment of previously undetermined museum specimens to this species. Specimens from Vietnam and Myanmar formed a single, well-supported clade, suggesting a broader distribution for A. murphyi than previously recognized. It is demonstrated for the first time that A. murphyi belongs to the A. coronata complex, together with A. coronata and A. cuongi, a result consistently supported by both genetic distances and phylogenetic tree topology.