Introduction: Obesity is one of the major health problems in Malaysia. It can lead to other metabolic diseases including diabetes and cardiovascular diseases. Unfortunately, effective treatment to overcome the health problem is yet to be discovered. One of the alternative solutions is by introducing a healthy diet through functional foods. Honey is well-known as one of the functional foods. However, the effectiveness in controlling obesity and then reducing the excess weight gain is still unclear. Several types of local honey were selected to observe their effects on obese-induced rats. Methods: Acacia, Gelam and Pineapple honey were harvested directly from apiaries and forest in Malaysia. Then, the quality of the honey was measured and standardized through physicochemical and antioxidant analyses. Male Sprague Dawley rats were induced to obese by consuming a high-fat diet. Then, the rats were fed with the honey for acute (one single honey consumption for 14 days) and subacute study (honey consumption daily for 16 weeks). Rats fed with orlistat (commercial drug for obesity) and fake honey were used as controls. Physical observation and biochemical analysis were conducted. Results: In the acute study, Gelam and Pineapple honey were significantly reduced the rat’s body weight, glucose, cholesterol and triglycerides level. More profound effects were observed in the subacute study, where all the honey samples were significantly reduced excess weight gain, glucose and the lipid profiles. Meanwhile, orlistat was also demonstrated a reduction in the excess weight gain but with toxicity side effects to the hepatic and renal function. In contrast, fake honey showed significantly increased body weight gain, glucose and the lipid profile in the rats. Conclusion: Based on the results, Malaysian honey samples have the potential to be a part of the daily diet in controlling obesity and reducing excess gain. However, more studies are required to confirm the findings.