Currently, the goals of sponge city construction mostly focus on urban surface water, with few considerations of groundwater indicators, and there is a lack of simulation methods that consider the interaction between surface water and groundwater under low impact development (LID) scenarios. Taking a sponge campus in Xi'an as the research object, this paper proposes a method to realize the interaction between surface water and groundwater at different spatial and temporal scales, so as to construct a SWMM-MODFLOW coupled numerical model to carry out the analysis of hydrological effect of sponge city comprehensively taking into account both surface water and groundwater. Simultaneously, the SWMM is coupled with the NSGA-III algorithm for multi-objective optimization of LID facility configurations, aiming to identify a globally optimal solution set for LID facility configurations under both long and short-duration rainfall scenarios. A novel framework for a comprehensive evaluation system of surface water-groundwater benefits is also developed to comprehensively assess LID facility optimization schemes that meet the goals of stormwater runoff infiltration and reduction, pollution interception and purification, and groundwater recharge conservation. The simulation results show that after optimization, the LID scheme has good surface runoff regulation effects and pollution reduction capabilities, reducing the runoff peak from 2.297 m3/s to 2.128 m3/s, significantly lowering the risk of inundation and effectively reducing the total suspended solids (SS) load by 42.38 kg at the outfall. Meanwhile, the groundwater recharge effect is particularly significant in September. Compared to the baseline scenario, the average groundwater levels from June to September were raised by 3.966 cm, 5.120 cm, 6.743 cm, and 7.639 cm, respectively. The maximum daily groundwater level rise reached 7.82 cm, while the average groundwater level for the whole year of 2023 increased by 2.61 cm. The maximum transport area of pollutants decreased from 2359.44 m2 to 1796.54 m2, and the maximum transport distance reduced from 79.985 m to 69.977 m. Additionally, the central concentration of pollutants also decreased. This optimization evaluation framework will aid decision-makers in selecting LID facility management strategies that balance the dual benefits of surface water runoff and groundwater regulation.