While advances in quantum hardware occur in modest steps, simulators running on classical computers provide a valuable test bed for the construction of quantum algorithms. Given a unitary matrix that performs certain operation, obtaining the equivalent quantum circuit, even if as an approximation of the input unitary, is a non-trivial task and can be modeled as a search problem. This work presents an evolutionary search algorithm based on the island model concept, for the decomposition of unitary matrices in their equivalent circuit. Three problems are explored: the coin for the quantum walker, the Toffoli gate and the Fredkin gate. The algorithm proposed proved to be efficient in decomposition of quantum circuits, and as a generic approach, it is limited only by the available computational power.