Three-dimensional (3D) micro structured beams reinforced with a single-walled carbon nanotube (C-SWNT)/polymer nanocomposite were fabricated using an approach based on the infiltration of 3D microfluidic networks. The 3D microfluidic network was first fabricated by the direct-write assembly method, which consists of the robotized deposition of fugitive ink filaments on an epoxy substrate, forming thereby a 3D micro structured scaffold. After encapsulating the 3D micro-scaffold structure with an epoxy resin, the fugitive ink was liquefied and removed, resulting in a 3D network of interconnected microchannels. This microfluidic network was then infiltrated by a polymer loaded with C-SWNTs and subsequently cured. Prior to their incorporation in the polymer matrix, the UV-laser synthesized C-SWNTs were purified, functionalized and dispersed into the matrix using a three-roll mixing mill. The final samples consist of rectangular beams having a complex 3D skeleton structure of C-SWNT/polymer nanocomposite fibers, adapted to offer better performance under flexural solicitation. Dynamic mechanical analysis in flexion showed an increase of 12.5% in the storage modulus compared to the resin infiltrated beams. The nanocomposite infiltration of microfluidic networks demonstrated here opens new prospects for the achievement of 3D reinforced micro structures.