In order to measure effectively the damage of warship structure in UNDEX, and optimized measuring point layout, the typical warship finite element model is established. By using the acoustic-structure coupling method embedded in the large finite element analysis software ABAQUS, it was simulated that the impulsion response of the warship structure subjected to the explosion loading. Analyzed the warships weakness and acted the weakness as the major measure position which based on the simulation results, combined with the sea test experience and engineering practice, reasonably set sensor station meanwhile objectively measured structure damage, it was put forward that measuring point layout method for warship structure damage in UNDEX. The result of offshore explosion test verified that the coincidence numerical simulations with test value is good, the design of measuring point layout method is rational.