To study the prevalence of musculoskeletal disorders (MSDs) and related factors in female greenhouse workers. A questionnaire survey was conducted among 851 female greenhouse workers in Shandong province in 2015. The incidence of MSDs among the female greenhouse workers was 82.79. For the MSDs in female greenhouse workers, the top four affected body sites were low back (65.82), knees (49.10), neck (25.75) and shoulder (23.47). Multivariate logistic regression analysis showed that age ≥50 years (=2.098, 95: 1.353-3.252), working years ≥20 (=1.703, 95: 1.116-2.599), repetitive work (=1.903, 95: 1.183-3.061), standing for prolonged time (=2.902, 95: 1.183-7.120) and frequent slightly bending down (=2.979, 95: 1.823-4.867) were the main risk factors for MSDs in female greenhouse workers. Aiding tools was the protective factor (=0.400, 95:0.229-0.697). The findings showed a relatively higher prevalence of MSDs in female greenhouse workers. It is necessary to take appropriate measures to prevent and control the incidence of MSDs in female greenhouse workers.