Abstarct: Saffron is a product with high nutritional value and medicinal effects. Traditional methods are still used to harvest this product, which causes microbial contamination during collection and processing. Aspergillus is one of the most important microorganisms in saffron, which producing aflatoxin toxin, it can serious problem to the health of consumers. Therefore, the elimination methods of this product are of more importance. In this study, saffron stigma was decontamination with the cold plasma, which is a suitable technologies for heat sensitive products. The effect of cold plasma with a voltage of 3.2 KV and a duration of 2 minutes on the physico-chemical and microbial properties of saffron was investigated. The results of this investigation showed that a plasma treatment could be insignificant influence on the eradicate A.niger spores on saffron. Optical emission spectroscopy analysis showed the effect of active species of plasma on chemical and physical changes in saffron, plasma has been able to completely decontamination its microorganisms without harmful effects on the product. The influences of plasma treatment on surface morphology, antioxidant activity, primary chemical compounds, color, flavor, and odor of saffron were also investigated by FESEM imaging, DPPH assay, UV-Vis spectrophotometry, and colorimetry, respectively. In general, it can be said this method not only did not have destructive effects on saffron, but also increased some of its quality indicators. One of the potential advantages of this method is that plasma processing takes place in the last stage of saffron packaging. In this case, all contaminants in the product are removed during harvest, storage, transportation and packing by plasma treatment.