Energy storage systems with many Lithium Ion battery cells per string require sophisticated balancing hardware due to individual cells having manufacturing inconsistencies, different self discharge rates, internal resistances and temperature variations. For capacity maximization, safe operation, and extended lifetime, battery balancing is required. Redistributive Non-Dissipative balancing further improves the pack capacity and efficiency over a Dissipative approach where energy is wasted as heat across shunt resistors. Redistribution techniques dynamically shuttle charge to and from weak cells during operation such that all of the stored energy in the stack is utilized. This thesis identifies and develops different balancing control methods. These methods include a unconstrained optimization problem using a Linear Quadratic Regulator (LQR) and a constrained optimization problem using Model Predictive Control (MPC). These methods are benchmarked against traditional rule based (RB) balancing. The control systems are developed using MATLAB/Simulink and validated experimentally on a multiple transformer individual cell to stack topology. The implementation uses a DC2100A Demo-board from Linear Technology with bi-directional flyback converters to transfer the energy between the cells. The results of this thesis show that the MPC control method has the highest balancing efficiency and minimum balancing time. / Thesis / Master of Applied Science (MASc)