This study investigated the comparative effects of fish oil (FO) and perilla oil (PO) on metabolic disorders and inflammation in mice fed a high-fat diet. Both FO and PO showed similar benefits in reducing body weight, glucose, insulin, triglycerides, and total cholesterol, and in decreasing inflammation markers. These effects were found to be dependent on the MyD88 pathway of TLR4 signaling. The findings suggest that plant-based ω-3 PUFAs, such as those in PO, offer a viable alternative to marine ω-3 PUFAs.