Tire antioxidants are essential functional chemical additives in tire rubber production. Because of the characteristic easy precipitation in the water environment, the environmental pollution problem caused by tire antioxidants is concerning. To reveal the mechanism by which tire antioxidants reduce common oxidative factors (free radicals) in the environment and to control the potential biological thyroid hormone disorder risk of tire antioxidant derivatives, eight commonly used antioxidants in tire production were selected for analysis. Firstly, the ability of tire antioxidants to reduce three different free radicals was quantitatively characterized based on Gaussian calculation method and inferring the radical reduction mechanism of tire antioxidants. Moreover, using the PaDEL-Descriptor software and random forest algorithm found that the N-octanol/water partition coefficient, a structure descriptor of tire antioxidant molecules, significantly correlated with their reducing ability. Second, molecular docking and molecular dynamics methods were used to assess the thyroid hormone disorder risk to aquatic organisms of eight antioxidants after reducing three free radicals. And this is the first study to construct an assessment score list of potential thyroid hormone disorder risk of the derivatives of tire antioxidants after reducing free radicals to marine and freshwater aquatic organisms based on the risk entropy method. Through the screening of this list, it was found that the derivative of the antioxidant 2,2,4-trimethyl-1,2-dihydroquinoline oxidized by free radicals had the highest risk of thyroid hormone disorder. In addition, the top organism in the aquatic food chain was the most affected. This study also revealed that van der Waals interactions and hydrogen bonding were the main influencing factors of thyroid hormone disorder risk to aquatic organisms of the derivatives of tire antioxidants that reduce free radicals based on amino acid residue analysis. Overall, the results provide theoretical support for the selection of antioxidants and the avoidance and control of environmental risks in the tire rubber production process.