We report a chemical method to prepare metallic Fe porous nanocubes. The presence of pores embedded inside the cubes was attested by electron tomography. Thanks to electronic holography and micromagnetic simulations, we show that the presence of these defects stabilizes the vortices in assembly of interacting cubes. These results open new perspectives toward magnetic vortex stabilization at relatively low cost for various applications (microelectronics, magnetic recording, or biological applications).