Genistein (GEN) is a typical phytoestrogen that is widely distributed in legumes and other plant-derived foods, possessing significant biological activities such as potent antioxidant capacity and anti-cancer properties. However, excessive dietary intake of GEN may cause endocrine system disruption and increase the risk of cancer development, which highlights the urgent need for establishing a sensitive, rapid and reliable method for GEN detection. In this study, a novel electrochemical sensor dedicated to GEN detection was constructed, with metal–organic framework/reduced graphene oxide (MIL-100/RGO) as the core sensitive material. Reduced graphene oxide (RGO) was first synthesized by the modified Hummers method, followed by the fabrication of MIL-100/RGO nanocomposite via a facile hydrothermal method. MIL-100, with its unique porous structure, provides a large specific surface area and excellent redox activity, while RGO effectively enhances electron transfer efficiency of the composite. The two components exert a synergistic effect, significantly improving the overall electrochemical performance of the sensor. Results showed that the constructed sensor exhibits excellent electrochemical activity and strong anti-interference capability against common coexisting substances in food. It has a linear detection range of 2 ~ 150 μM with two linear segments: for 2 ~ 40 μM, the regression equation is ΔI = 0.09245C (μM) + 0.01877 (R2 = 0.9942) with a sensitivity of 1.3086 μM⁻1 cm⁻2; for 40 ~ 150 μM, the regression equation is ΔI = 0.0084C (μM) + 3.2841 (R2 = 0.9931) with a sensitivity of 0.1185 μM⁻1 cm⁻2, and a low limit of detection (LOD) of 0.93 μM. Moreover, the sensor achieved satisfactory sensitivity and accuracy when applied to real food sample detection, indicating great potential for practical application in GEN analysis.