This study investigated the inactivation effect of intense pulsed light (IPL) on various packaging films. The UV-C transmittance irradiance varied depending on the packaging materials, with the control group having an irradiance of 3.959 W/m2. For the thinnest layer of 30 mm, polypropylene (PP) had an irradiance of 3.258 W/m2, polyethylene (PE) had an irradiance of 3.193 W/ m2, and oriented polypropylene (OPP) had an irradiance of 3.200 W/m2. In contrast, polyethylene terephthalate (PET) exhibited a significantly lower irradiance of only 0.065 W/m2 for its thinnest film thickness of 100 mm. The light transmittance of the packaging materials was similar, with values of 91.3%, 89.7%, and 89.5% for PP, PE, and OPP, respectively. In contrast, PET exhibited a significantly lower light transmittance of 1.8% compared to the other packaging materials. These findings have practical implications for the food packaging industry. According to the packaging film material, the sterilization effects showed that the E. coli sterilization effect of PP was the highest, followed by PE and OPP, which were similarly effective. At the same time, PET exhibited the lowest sterilization effect. For PP film with a thickness of 30 mm, a 6.2 log reduction in the E. coli population was observed after 20 s of IPL treatment. Ultimately, inactivation was achieved after 60 seconds. Both PE and OPP films, which had a thickness of 30 mm, showed a 5.9 log reduction in E. coli after 30 s of IPL treatment, followed by complete inactivation after 60 s. The inactivation rate for PP, PE, and OPP films showed minimal variation regardless of thickness, although it gradually decreased with increasing thickness. For PET, achieving a 1 log reduction in E. coli required 180 s of IPL treatment at 100 mm thickness and 210 s at 120 mm thickness, indicating the influence of film thickness on inactivation rate. Even after 300 s of IPL treatment, the inactivation effect for PET remained around 1.5 log, the lowest among all packaging film materials.