In a multistage electromagnetic induction coilgun (EIC), the time-varying magnetic flux generated by the first stage (or coil) links with the coils in the subsequent stages and induces EMF across their terminals. The magnetic flux linkage and the induced EMFs depend on the distance between the stages (or coils). This induced EMF circulates a current through the coils in the subsequent stages, if allowed to flow by such means of the pulsed power source (PPS) connection with these coils, i.e., it depends on the winding direction (clockwise or anticlockwise) of the coils and the connection of the crowbar diode (CD) in the PPS circuit. If CD is connected in parallel to the capacitor bank, then the main series switch averts this induced current flow through the coil, but if CD is connected in parallel to the coil following its winding direction, then induced current flows through the coil. In this article, the effect of this induced current on the projectile motion inside a multistage EIC is analyzed using hollow projectiles of different lengths but of fixed mass and outer diameter. Computational analysis is performed using a finite element method (FEM)-based software, Ansoft Maxwell, with excitation given only to the first stage. The results are then experimentally validated with a two-stage EIC facility developed. Only two stages are considered since farther stages will have insignificant magnetic flux linkage with the first stage and the projectile. For each projectile, the distance between the two stages (or coils) is varied, starting from 2.8 to 14.8 cm with a linear step of 1 cm. The results indicate that the projectile motion is affected in a multistage system, depending on the distance between the stages and the projectile length. The analysis will be beneficial for maintaining a suitable distance between the stages in a multistage type of EIC.