To address water leakage in tunnels with high water pressure, a new waterproof drainage system was proposed. The system uses a spray-applied material with double-adhesive properties as a waterproof layer, significantly reducing leakages, and incorporates a unique bottom drainage system to reduce water pressure. In order to check the effectiveness of the new drainage system and to analyze the effects of various structural measures on pressure reduction, a numerical seepage analysis was carried out under the conditions of a water head of 160 m and a surrounding rock permeability of 1 × 10−6 m/s. The results show that the maximum water pressure on the secondary lining is 0.6 MPa, which is about 60% reduction compared to a fully enclosed waterproof system and shows a significant pressure reduction. The spacing of the circumferential drainage pipe and the width of the drainage sheet significantly affect the drainage performance, while the arrangement of the drainage system and the size of the bottom drainage pipe have minimal impact. With full consideration of pressure reduction, cost efficiency and construction feasibility, it is recommended to use the following drainage scheme for iterative calculations during the design stage: “1” shaped arrangement, blind pipe diameter of 10 cm, width of drainage sheets of 0.8 m, and drainage spacing of 6 m. By combining the experimentally determined hydrostatic peel-off strength of 1.4 MPa for spray-applied membrane, the applicable scope of the new drainage system was acquired. The research results can provide valuable insights into the application of spray-applied waterproofing membrane in drainage tunnels with high water pressure.