Methicillin-resistant Staphylococcus aureus (MRSA) is a Gram-positive aerobic bacteria that is difficult to treat and has zoonotic potential. MRSA infections have been well described in human and companion animal medicine; however, according to a Google Scholar and PubMed literature search, there has only been a single documented case in a sea turtle. Because of the zoonotic potential and popularity of reptiles as pets, reports of reptile cases are important to document. A 2-year-old intact male bearded dragon (Pogona vitticeps) was presented to the clinic for losing weight and lethargy. On the physical examination, multiple, erosive, diffuse skin lesions were noted. The dragon was also emaciated and had a dull mention. While next generation sequencing was performed, empirical treatment with ceftazidime (20 mg/kg q 72h SC) was initiated. Bloodwork was unremarkable. Next generation sequencing (MiDog) of the skin lesion showed 100% MRSA (6,900 cells/ sample). No resistant genes were detected for trimethroprim-sulfamethoxazole, so the dragon was given 30 mg/kg q12 h PO and topical mupricin (fair efficacy, <75%). At the one month recheck, the dragon had an approximate 20% weight gain, skin lesions were improved, and it had a brighter mention. Another MiDog sample was submitted and showed more diversity in the skin microbiome and that MRSA was still present but in a smaller percentage. The MRSA did develop more resistance to the antibiotics according to the MiDog results; however, the initial treatment course was elected to continue because of clinical improvement.