Deep coal seams have low permeability and poor wettability, making gas extraction difficult. This study presents a zero-energy consumption pulsating water hammer fracturing technique that uses the gravitational potential energy of high-elevation water and the pulsating pressure waves from the water hammer effect to induce fatigue damage in coal, creating an interconnected network of cracks. The research included experiments on water hammer pressure waves, multi-physics field coupling simulations at different flow rates, and discrete element simulations to analyze the fracture behavior of underwater hammer pressure. Results showed that initial flow velocity impacts the water hammer pressure’s intensity, range, and duration. Pressure shock waves propagate as expansion and compression waves, with peaks rising from 4.99 to 19.91 MPa within a 2–12 m/s flow rate range. Water hammer pressure reduced fracture initiation pressure by 23% compared to static pressure loading and increased fracture numbers by 13.4%. With pressure amplitudes between 2–18 MPa, fractures tripled, and the damaged area grew from 2.2 to 11%. A variable frequency combination loading strategy, starting with low frequency and then high frequency, was more effective for fracture propagation. This study offers a theoretical foundation for applying this technology to enhance coal seam permeability and gas pumping efficiency.