In this paper, the orbital instability theorem is introduced for Hamiltonian partial differential equation (PDE) systems. Our specific focus lies on the Schrödinger system featuring quadratic nonlinearity, and we apply the theorem to analyze its behavior. Our theorem establishes the abstract instability theorem for a specific class of Hamiltonian PDE systems. We consider the energy functional to be of class (C^2) rather than (C^3), particularly when the second derivative of the energy exhibits multiple degenerate kernels. Using this theorem, we provide a comprehensive classification of the stability and instability of the semitrivial solution within the Hamiltonian PDE system featuring quadratic nonlinearity. This classification resolves an open problem previously posed by Colin et al. (Ann Inst Henri Poincaré Anal Non Linéaire 26:2211–2226, 2009), specifically in cases of homogeneous nonlinearity. Additionally, we present proof of instability results for synchronous solutions of Hamiltonian PDE systems. We believe that this abstract theorem constitutes a novel contribution with potential applicability in various situations beyond those specifically discussed in this paper.