This study focused on optimizing the power generation of a heaving point-absorber wave energy converter (HPA-WEC) by integrating submerged breakwaters. An optimization analysis was conducted based on a framework developed in the authors’ previous work, aiming to maximize the capture width ratio (CWR) by inducing Bragg resonance. Numerical simulations were conducted using a two-dimensional frequency domain boundary element method (FD-BEM) under irregular wave conditions. Advanced particle swarm optimization (PSO) was used for the optimization, with design variables that included the power take-off (PTO) damping coefficient, spring constant, and position and shape of the submerged breakwaters. The results showed that the CWR almost doubled when two breakwaters were used compared with the case without breakwaters. The CWR significantly increased, even with only one breakwater installed behind the WEC. A coastal stability analysis showed that installing two breakwaters provided the best performance, reducing the transmitted wave energy by approximately 25%. Furthermore, the CWR reached its maximum when the distance between the breakwater endpoints equaled the wavelength of the peak wave frequency, indicating the occurrence of Bragg resonance. This study underscores the potential of submerged breakwaters in enhancing power generation and coastal stability in the design of HPA-WECs.