Background Mineworkers, including females, are prone to work-related musculoskeletal disorders and these disorders are not well reported amongst female mineworkers in South Africa. Objective This study aimed to identify the factors associated with the presence of musculoskeletal pain over a 12-month period amongst female mineworkers ( n = 225) in a South African goldmine. Method Female mineworkers’ responses to the presence of musculoskeletal pain over the previous 12-month period and their exposure to physical and psychological factors were elicited using a standardised questionnaire. Descriptive and multivariable analytical statistics were conducted to test for associations between physical and psychological factors and the presence of musculoskeletal pain over the previous 12 months. Results The median age of participants was 40 years, with 50.22% of participants reporting the presence of musculoskeletal pain over the previous 12 months. On multivariable analysis, education level and good to excellent health status were protective against the existence of pain during the previous 12 months. Participants’ perceived ratings of experiencing moderate-to-high pain intensities were significantly associated with reports of pain over the past 12 months. Conclusion These findings may raise awareness amongst physiotherapists and occupational medicine physicians about the factors associated with musculoskeletal pain amongst female mineworkers, which they can then use in managing and developing interventions aimed at improving the physical health of female mineworkers. Clinical implications Our study highlights the need for medical surveillance of musculoskeletal pain in female mineworkers. A cohort study in a larger study population and across several mines will build on the existing cross-sectional information and help inform workplace interventions for female mineworkers.