The exothermic reactor for ammonia synthesis is a primary device determining the performance of the energy storage system. The Braun-type ammonia synthesis reactor is used as the exothermic reactor to improve the heat release rate. Due to the entirely different usage scenarios and design objectives, its parameters need to be redesigned and optimized. Based on finite-time thermodynamics, a one-dimensional model is established to analyze the effects of inlet gas molar flow rate, hydrogen–nitrogen ratio, reactor length and inlet temperature on the total entropy generation rate and the total exothermic rate of the reactor. It’s found that the total exothermic rate mainly depends on the inlet molar flow rate. Furthermore, considering the minimum total entropy generation rate and maximum total exothermic rate, the NSGA-II algorithm is applied to optimize seven reactor parameters including the inlet molar flow rate, lengths and temperatures of the three reactors. Lastly, the optimized reactor is obtained from the Pareto front using three fuzzy decision methods and deviation index. Compared with the reference reactor, the total exothermic rate of the optimized reactor is improved by 12.6% while the total entropy generation rate is reduced by 3.4%. The results in this paper can provide some guidance for the optimal design and application of exothermic reactors in practical engineering.