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Abstract The supply chain of shallot commodities in Bantul Regency involves several business actors including farmers, middleman, collectors, wholesalers, retailers and small traders. In the process of each supply chain, risks will always be encountered. The risks in each tier of shallot supply chain certainly need to be identified and analyzed. The categories of each of these risks will determine the appropriate supply chain risk management steps based on the risk categories obtained. This study was conducted to analyze the risk of shallot supply chains in the three largest shallot producing sub-districts. The Rapid Agricultural Supply Chain Risk Assessment (RapAgRisk) method is used to carry out risk analysis, and the sampling method used was purposive sampling and snowball sampling. The results show that the farmer is the tier with most risks faced compared to the others. Excessive stock is the risk that requires adequate priority to manage, and it is faced by all levels of the shallot supply chain. Meanwhile, farmers are the weakest supply chain actors in bargaining power, and the small traders are the most vulnerable actors in the face of risks associated with quality damage and slow sales rate.