The process of microwave assisted extraction of antioxidants extract from Garcinia pedunculata Robx. was optimized using response surface methodology. A Box-Behnkem design was used to investigate the effects of three independent variables, namely solvent concentration(%), solvent to sample ratio(v/w), and radiation time(min) on total antioxidant activity by DPPH and ABTS radical scavenging activity. Optimal conditions for extraction of antioxidants concluded that the solvent concentration be 70.79%, solvent to sample ratio be 20:1, and irradiation time at 4.73 minutes. However, the antioxidant activity of the extract was found to reach upto 85.98% DPPH radical scavenging activity and 19.23 mg-trolox equivalent/g dry weight. FTIR study revealed that, the extraction of antioxidant extract was higher with increase in irradiation time, but the antioxidant activity of the extract was lower with increase in time. The structural changes in plant material after extractions observed by light microscopy provided visual evidence of the disruption effect.