This study employs molecular dynamics methods to investigate the dynamic process of collapse of near-ellipsoidal non-spherical cavitation bubbles induced by shock waves. On the one hand, the collapse process of non-spherical bubbles is similar to that of spherical bubbles, both characterized by compression and rupture stages, accompanied by the generation of high-speed microjets. On the other hand, due to the combined effects of spatial dimensions and surface tension, the initial angle between the major axis of the non-spherical bubble and the shock wave systematically influences the bubble’s collapse time, jet velocity, and jet angle. It was found that the collapse time and jet velocity decreased as the initial angle increased, while the jet angle reached its maximum when the initial angle was 45◦ . The universality of this conclusion was verified using bubbles of different sizes.