To improve response to emergencies, the World Health Organization (WHO) in collaboration with the Ministry of Health and partners convened a Joint Operational Review (JOR) to evaluate South Sudan’s response to health emergencies and other humanitarian crises. The JoR aimed at identifying and documenting the best practices, gaps, challenges and lessons learned during the response to the humanitarian emergencies so that efforts and resources of WHO and partners are prioritized to deliver results and are aligned with up-to-date, evidence-based plans.