Complementary foods are provided to infants when the amount of breast milk produced by the mother is insufficient. Numerous baby foods are available in the market worldwide but their quality is questionable. Therefore, we used our recently invented 2–6μm mid-infrared generating atomizer (MIRGA) on various brands of complementary baby foods to safely enhance their quality in terms of nutrition and sensory attributes. The effects of mid-IR irradiation on baby food included compound transformation, changes in the protein concentration, changes in the chemical bond, and changes in the nanoparticle morphology. The matrix structure and sensory attributes and other benefits were analyzed and validated with various tests and are presented here.