Dracocephalum (dragonhead) with about 60 to 70 species is mostly annual or perennial herbs or subshrubs. These species have medicinal values including anticancer, antioxidant, ant hypoxic and immune modulator activities. Dracocephalum thymiflorum grows in limited areas in Iran and forms few local populations and is extensively used by locals. We have no information on anatomical and morphological features of these medicinal species in the country. Clustering and PCA ordination of the studied populations based on morphological and anatomical data separated some of these populations from the others suggesting the existence 2 varieties within this species.