The effect of using a pulse shaper technique, such as rounding a striker or applying a pulse shaper on the signals recorded with the split Hopkinson pressure bar (SHPB) technique, when the striker and the input bar are in an imperfect position, was investigated. Two of the most common cases have been analyzed: an offset of the symmetry axes of the striker and the input bar; and an inclination angle between the striker and the input bar. LS-Dyna software was used to examine this problem numerically. The inclination angle imperfection has a significant impact on signal disturbances, whereas the use of a rounded striker significantly affects the limitation of the vibration flexural modes. In all considered cases, a slight imperfection causes a reduction in the high-frequency Pochhammer–Chree oscillations.