During injection molding process the material is under high thermal and flow related stresses. Due to these stresses a morphological gradient inside the molded part occur which influences the application relevant properties. Polyamide 66 (PA 66) was injection-molded to obtain samples with a structure gradient between skin and core, as it was revealed by analysis of the semi-crystalline morphology using polarized-light optical microscopy. Wide-angle X-ray scattering (WAXS) and small-angle X-ray scattering (SAXS) were employed to characterize thin sections with a thickness of the order of magnitude of 50 µm, allowing detection of crystals of different perfection, as a function of the distance from the surface. It was found that the transparent and non-spherulitic skin layer contains rather imperfect α-crystals while with increasing distance from the surface the perfection of α-crystals continuously increases. Since variation of the molding conditions allows tailoring the skin-core morphology, the present study was performed to suggest a reliable route to map the presence of specific semi-crystalline morphologies in such samples. The results contribute the description of the process parameters influencing the injection-molding induced morphology. Which is required for the understanding of process-structure-property relationships and thus for process optimization in order to control the process induced morphology.