Successful surface modification of iron oxide nanoparticles is crucial for their usage in applications. However, ligand exchange methods introducing siloxanes have several drawbacks. Presented here is a novel approach for the surface modification of iron oxide nanoparticles by making use of siloxanes, synthesized by thiol-ene click chemistry, with protected functional groups. Afterwards the ligands are deprotected to liberate their functionality. This approach solves the issues related to ligand orientation and colloidal stability during surface modification.