Transfer Alignment (TA) is the initialisation process of the Inertial Navigation System (INS) of an air-launched weapon before its release by using the data from the aircraft INS. The aim of this paper is to improve the TA performance by taking into account the aircraft flexures deterministically. The developed procedure neither requires captive carry tests for determination of flexures nor increases the size of the problem, and can be used in real-time missions of any type of military aircraft. The procedure is evaluated for the Velocity Match (VM) method as well as the Velocity and Attitude Match (VAM) method, which are applied through a Kalman Filter (KF). Using a short-time Wing-Rock (WR) manoeuvre, the results of both methods are compared to each other for two cases in which either the flexures are taken into account deterministically, or modelled as noise by assuming that they are unknown. Standard deviations of the errors and the Circular Error Probable (CEP) variations have shown that the TA performance of the VAM method can be much improved if aircraft flexures are incorporated deterministically into the method. The improved performance makes possible target of opportunity missions at shorter weapon ranges, and it decreases target strike errors.