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We investigate nanoscale transport of dipolar fluids.By generalizing Onsagers principle of least dissipation of energy to fluid system with microstructure, we derive via a variational approach the hydrodynaric equations including the generalized Navier-Stokes equation, the macroscopic balance equation of intrinsic angular momenta carried by fluid molecules, and the dipolar relaxation equations in the presence of external field.Simultaneously, the generalized boundary conditions are obtained.In the bulk equations, the translation-rotation coupling characterized by the vortex viscosity plays a central role for the exchange of angular momenta between the orbital part and the intrinsic spinning part.Correspondingly, interfacial translation-rotation coupling is important for nanochannels and is properly taken into account by our generalized boundary conditions.