This paper describes the homogenization of fin layers for structural analysis of heat exchanger cores composed of flat tubes and wavy fins. It is assumed that uniform deformation prevails at the bonded interfaces between fins and tubes, and also that the fins have the Y-periodicity in the fin layers. The homogenization method for 3D periodic solids is then shown to be applicable to the homogenization of fin layers, provided that the uniform deformation condition is imposed at the bonded interfaces between fins and tubes. The resulting homogenization method is applied to designed and real shapes of outer and inner fins in an intercooler. The evaluated, homogenized elastic stiffnesses of fin layers are verified by performing finite element analyses using full-scale and fin-homogenized models of tube-fin connected pieces subjected to uniaxial compression. An experiment of a tube-fin laminated block under uniaxial compression is further performed to demonstrate that the real shapes of outer and inner fins are definitely important for the homogenization of fin layers.