Introduction:Diarrhoea is one of the leading causes of mortality and morbidity in children under five worldwide. In South Sudan, it accounts for 42.9% of under 5 mortality. The clinical outcomes for diarrhoea correlate with the quality of hospital care.Therefore, to maintain the quality of hospital care, health workers should utilize evidence based guidelines in managing diarrhoea, such as the WHO/IMCI case management of acute diarrhoea, which has been introduced by the ministry of health to decrease mortality & morbidity. In this study, we assessed the health workers’ practices regarding management of acute diarrhoeain children aged 6-59months. Objectives:To determine the proportion of children aged 6-59 months with acute diarrhea at JTH who are assessed for clinical signs of dehydration and correctly classified and correctly prescribed IV fluids and/or ORS for management of dehydration as per WHO guidelines. To describe the knowledge of health workers with regards to the assessment and classification of diarrhoea and the clinical indications of rehydration fluids in the management of children with acute diarrhea and their view on the availability of commodities necessary for management of acute diarrhoea. Study Design: The study was a cross-sectional study comprising two parts. The first part was a hospital based retrospective audit of records of Children aged 6-59months admitted with acute diarrhoea at the Juba Teaching Hospital between March and June 2014, whereas the second part was interviews of health workers regarding their knowledge on the management of acute diarrhoea in Children aged 6-59 months. Study Area: Juba Teaching Hospital (JTH) paediatric ward. Methodology: The standard WHO/IMCI for assessment of health workers' performance in the management of children under 5years illnesses was adapted and used in the study. Questionnairesand interviews were used to collect data on health workers’ knowledge and practice in the management of acute diarrhoea. Descriptive analysis was used to determine the means, frequencies and proportions of the various variables. All the analyses were done using SPSS software version 21.