Mastitis is considered one of milk-producing animals' most widespread infectious diseases. The present study evaluated the prevalence of antibiotic-resistant isolates of Staphylococcus aureus (S. aureus) including methicillin-resistant S. aureus (MRSA), β-lactam-resistant S. aureus (BRSA), aminoglycoside-resistant S. aureus (ARSA), and tetracycline-resistant S. aureus (TRSA) from the udder of dromedary camels along with the associated risk factors and the antibiogram of resistant isolates. Phylogenetic analysis of antibiotic-resistant genes with NCBI sequences was performed to check their homology. A total of 384 milk samples were collected and subjected to standard microbiological procedures to isolate S. aureus. The results revealed that 177 milk samples were found positive for subclinical mastitis (SCM) out of which 101 milk samples were found positive for S. aureus. The molecular assay found the prevalence of MRSA, BRSA, ARSA, and TRSA as 48.51 %, 46.53 %, 42.57 %, and 39.60 % by targeting the mecA, blaZ, accA-aphD, and tetK genes respectively. The study isolates significant similarities to each other and to previously reported sequences from other countries that were found by in-silico analysis, indicating the possibility of pathogen transboundary transmission. This study also revealed potential risk factors that aid in the spread of mastitis in camels. Among various risk factors, the most significant were farm hygiene, physiological status of animals, type of mastitis, teat injury, use of teat dips, and milk leakage (p <
0.05). The antibiogram of antibiotic-resistant isolates of S. aureus revealed that the highest resistance was observed against penicillin followed by amoxicillin and oxytetracycline while levofloxacin was the most sensitive drug. This study highlights the high prevalence of antimicrobial-resistant S. aureus in camel mastitis. Identified risk factors provide valuable insights into management practices that contribute to disease occurrence, aiding in the development of targeted control strategies. Additionally, antimicrobial susceptibility findings offer guidance for optimizing treatment protocols to effectively manage S. aureus-induced mastitis in camels and mitigate the spread of antimicrobial resistance.