In this paper, injection-molded isotactic polypropylene (iPP) microparts and macroparts were respectively fabricated by the molds with different thickness under the same processing conditions. Comparative study on microstructure and mechanical property was carried out by means of scanning electron microscopy (SEM), two-dimensional wide-angle X-ray diffraction (2D-WAXD), two-dimensional small-angle X-ray scattering (2D-SAXS), differential scanning calorimetry (DSC) and tensile test. SEM images reveal that the two parts show distinctly different hierarchical structure. An obvious 'skin-core' structure is present for the macroparts, while a wide distribution of shish-kebab structure develops in both shear and core layer for microparts, exhibiting a specific 'core-free' morphology. 2D-WAXD, 2D-SAXS and DSC results show that microparts have higher orientation degree and crystallinity as compared to macroparts, which are responsible for the remarkably high tensile strength and modulus. Our work provides a good example for better understanding processing structure-property relationship of iPP through tuning their internal microstructure.