In order to understand the development law of water-conducting fractures in overlying strata during the mining process of coal seam, an elastic wave exploration method based on key stratum theory is proposed to predict the height of water-conducting fracture zone. Taking Yushen mining area as the background, the development and evolution of fractures and the three-dimensional distribution characteristics of water-conducting fracture zone are studied by combining well-ground microseismic monitoring, high-density three-dimensional seismic exploration, borehole investigation, FLAC3D numerical simulation and similar physical simulation tests. The results indicate that the trial mining face's fracture-to-coal ratio ranges from 25.86 to 30.76, with the maximum fracture-to-coal ratio near the cutting eye at 30.76 and the minimum in the central portion of the trial mining face at 25.86. The primary characteristics of rock mass fracture distribution in the mined area are the development of fractures predominantly along high-angle and even vertical bedding planes. Within the fracture zone, fractures increase from top to bottom, with high-angle fractures developing in the lower section and high-angle and horizontal fractures developing simultaneously in the upper section. The water-conducting fracture zone undergoes a developmental process from inception to development, reaching its maximum height, and eventually stabilizing as coal seam mining progresses, overlying rock subsides, strata separation, and damage formation. The three-dimensional shape of the water-conducting fracture zone in the roof of the Yushen mining area exhibits a morphological pattern where the height of the fracture zone gradually decreases from the cutting eye towards the goaf. It also transitions from high to low along both sides and from the periphery towards the interior of the working face. In the trend and strike directions, it exhibits saddle-like characteristics. By comparing the monitoring results, the rationality of the elastic wave prospecting method for predicting the height of water-conducting fracture zones based on critical layer theory was verified. This research holds significant reference value for coal mining under similar geological conditions, especially in terms of water preservation during mining operations.