Evaluation of store separation experimentally is expensive; time consuming and dangerous as human risks are involved. This results in development of computational methods to simulate the store separation. Store separation studies include store separation simulation and determination of linear and angular displacements of store under the influence of complex and non-uniform flow field of parent aircraft. In order to validate the methodology, the unsteady CFD results, obtained by coupling six degrees of freedom (6-DOF) with flow solver, are compared with experimental results. Major trends are captured which are consistent with experimental results. Variation in store trajectory has been evaluated with different combinations of forward and rearward ejection forces. By increasing the magnitude of forward ejection force vertical displacement increases and store separates more safely from the wing. Moreover, effects of varying parent wing configuration on store trajectory has also been analyzed by incorporation of leading-edge flaps (LEFs). Store always separates in nose down condition due to LEFs which increases vertical displacement of store and thus safety related to store separation is enhanced.