We study the Wasserstein Hamiltonian flow with a common noise on the density manifold of a finite graph. Under the framework of stochastic variational principle, we first develop the formulation of stochastic Wasserstein Hamiltonian flow and show the local existence of a unique solution. We also establish a sufficient condition for the global existence of the solution. Consequently, we obtain the global well-posedness for the nonlinear Schrödinger equations with common noise on graph. In addition, using Wong-Zakai approximation of common noise, we prove the existence of the minimizer for an optimal control problem with common noise. We show that its minimizer satisfies the stochastic Wasserstein Hamiltonian flow on graph as well.