Abstract Long-distance water supply systems are important measures to improve the water resources distribution, and the water hammer protection devices such as air vessels are usually added in the project to ensure the safety and stable operation. However, the sediment particles are always ignored in the design. Hence, a numerical model and program were established for sediment laden water hammer based on the method of characteristics (MOC). Using the proposed model, the water hammer protection influences of sediment particles parameters are simulated for the same pipeline system of a water supply project. The result shows that the resistance loss of sediment-laden water in pipelines is larger than that of water, and the initial head of pump needed to be increased to ensure the water levels of downstream reservoirs are consistent. After power failure and pump stopping, the negative pressure wave of sediment-laden water is 2.97 m higher than that of water, and the theoretical minimum internal pressure along pipelines is 7.8 m lower. With the same air vessel protection, the lowest minimum internal pressure heads along pipelines decrease with the increase of quantities of sediment, while the results show no obvious influence by changes of median particle diameters. The lowest absolute pressure of pipeline could reach −0.69 m under the condition of 50 kg/m3 quantity of sediment and 0.05 mm median particle diameter. The relevant research results are of great significance sediment-laden water hammer numerical simulation and water hammer protection design.