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Humanitarian aid is aimed at mitigating the suffering of people, alleviating poverty, and laying a firm foundation for sustainable peace and development. This paper assesses the impact of humanitarian aid in two counties of Central Equatoria State of South Sudan. Data was gathered through in depth interviews of key informants. Stratified purposive interviews were conducted in Juba and Kajokeji Counties. Two focus group discussions, one in Juba and one in Kajokeji, including workshops and application of grounded theory where data is constantly compared for validity. Secondary data was gathered from various academic and policy institutions. Method for analysis included process of data reduction, data display analysis, interpretation and observation. Processes of recovery and development require humanitarian principles but the policy makers in the government underestimated the challenges in the process for delivery of humanitarian aid. Lack of full practice of good governance made the administrative institutions ineffective in process for office administration.