We report here on the utilization of poly(lauryl methacrylate)--poly(oligo ethylene glycol methacrylate) (PLMA--POEGMA) amphiphilic block copolymers, which form compound micelles in aqueous solutions, as nanocarriers for the encapsulation of either magnetic iron oxide nanoparticles or iron oxide nanoparticles, and the model hydrophobic drug indomethacin in the their hydrophobic core. The mixed nanostructures were characterized using dynamic light scattering (DLS) and transmission electron microscopy (TEM) in terms of their structure and solution properties. Magnetophoresis experiments showed that the mixed solutions maintain the magnetic properties of the initial iron oxide nanoparticles. Results indicate that the cumulative hydrophilic/hydrophobic balance of all components determines the colloidal stability of the nanosystems. The effect of salt and bovine serum albumin (BSA) protein concentration on the structure of the mixed nanostructures was also investigated. Disintegration of the mixed nanostructures was observed in both cases, showing the importance of these parameters in the structure formation and stability of such complex mixed nanosystems.