We present an initialisation method for variational quantum algorithms applicable to intermediate scale quantum computers. The method uses simulated annealing of the efficiently simulable Clifford parameter points as a pre-optimisation to find a low energy initial condition. We numerically demonstrate the effectiveness of the technique, and how it depends on Hamiltonian structure, number of qubits and circuit depth. While a range of different problems are considered, we note that the method is particularly useful for quantum chemistry problems. This presented method could help achieve a quantum advantage in noisy or fault-tolerant intermediate scale devices, even though we prove in general that the method is not arbitrarily scalable.