We consider the dynamical system with boundary control for the vector Schrödinger equation on the interval with a non-self-adjoint matrix potential. For this system, we study the inverse problem of recovering the matrix potential from the dynamical Neumann-to-Dirichlet operator. We first provide a method to recover spectral data for the Schrödinger system and consequently prove controllability of the system. We then develop a strategy for solving the inverse problem using this method with other techniques of the boundary control method.