We demonstrate the selective functionalization of 3-D polymer microstructures that were created using multiphoton absorption polymerization. By fabricating different portions of the structures with acrylic and methacrylic polymers, we are able to take advantage of the differential reactivities of these materials to perform functionalization chemistry on a single polymeric component. We demonstrate the selective deposition of metal to create structures, such as a functional microinductor. Our strategy is quite general and can be extended readily to the deposition of materials, such as metal oxides and biomolecules.