Here, we give a complete group classification of the general case of linear systems of three second‐order ordinary differential equations excluding the case of systems which are studied in the literature. This is given as the initial step in the study of nonlinear systems of three second‐order ordinary differential equations. In addition, the complete group classification of a system of three linear second‐order ordinary differential equations is carried out. Four cases of linear systems of equations are obtained. Copyright © 2015 John Wiley & Sons, Ltd.