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The parallel reservoirs in the upper reach of the Hanjiang River are key projects for watershed management, development, and protection. The optimal operation of parallel reservoirs is a multiple-stage, multiple-objective, and multiple-decision attributes complex decision problem. Taking Jiaoyan–Shimen parallel reservoirs as an example, a method of multi-objective optimal operation decision of parallel reservoirs (MOODPR) was proposed. The multi-objective optimal operation model (MOOM) was constructed. The new algorithm coupling NSGA-II, TOPSIS, and GCA was used to solve the MOODPR problem. The method of MOODPR was formed by coupling problem identification, model construction, an optimization solution, and scheme evaluation. The results show that (1) combining the Euclidean distance with the grey correlation degree to construct a new hybrid closeness degree makes the multi-attribute decision making method more scientific and feasible. (2) The NSGA-II-TOPSIS-GCA algorithm is applied to obtain decision schemes, which provide decision support for management. (3) It can be seen from the Pareto chart that for the Jiaoyan–Shimen parallel reservoirs, the comprehensive water supply was negatively related to ecology. (4) The comprehensive water supply and ecological AAPFD value in the extraordinarily dry year was 4.212 × 10⁸ m³ and 4.953. The number of maximum continuous water shortage periods was 4 and 6. The maximum ten-day water shortage was 4.46 × 10⁷ m³ and 2.3 × 10⁶ m³. The research results provide technical support and reference value to multi-objective optimal operation decisions for parallel reservoirs in the upper reach of the Hanjiang River. Full article