We present a scanning tunneling microscopy study of Fe and Co intercalated at the graphene-Ir(111) interface. In the case of Fe, we investigate the morphology of the surface with respect to the annealing temperature, which activates the intercalation, and as a function of coverage. By increasing the coverage we show that it is possible to intercalate multilayers at the interface. Finally, we demonstrate that the successive intercalation of Co and Fe for the same sample leads to distinct adjacent intercalation areas.