Introduction: Musculoskeletal disorders (MSDs) are a significant occupational health concern worldwide, particularly among healthcare professionals such as laboratory technicians. MSDs lead to chronic pain, decreased productivity, and reduced quality of life. This study aimed to investigate the prevalence of MSDs and associated ergonomics risk factors among Saudi clinical laboratory technicians. Methodology: This cross-sectional study was conducted on 167 clinical laboratory technicians in Taif city, Saudi Arabia. Data were collected through an online self-administered questionnaire, distributed via Google Forms. The questionnaire collected demographics information, assessed the prevalence of musculoskeletal pain using the Nordic Musculoskeletal Questionnaire (NMQ), and evaluated ergonomics risk factors using the Dutch Musculoskeletal Questionnaire (DMQ). Results: In total, 77.3% of the sample exhibited musculoskeletal issues in the last 12 months, with lower back (52.1%), neck (48.5%), and shoulders (40.7%) being the most frequent muscular complaints among laboratory technicians. Experience and nationality showed significant associations with MSDs (p ≤ 0.05). Lower back and neck complaints were commonly recorded with multiple laboratory tasks, including sustained sitting and standing and repetitive movement, whereas lower back and shoulder pain were notably prevalent with pipetting work. Conclusions: Work-related musculoskeletal disorders were highly apparent in laboratory practice. Periodic ergonomic training is mandated among laboratory personnel to limit occupational disability.