Polycystic ovarian is a heterogenic disorder with unknown etiology. The symptoms of PCOS are broadly classified as clinical, metabolic and endocrine that finally brings out infertility. Many herbal medicines are there to cure the PCOS but this study is a novel try for treatment of PCOS with two different commonly available plants. The ultimate aim of the current study is to compare the best natural medicine for the cure of PCOS between the two plant extracts namely Pergularia daemia and Citrullus Colocynthis. Female albino wistar strain rats were used to induce PCOS with Testosterone Propionate. The hormones that plays an essential role in the menstrual cycle are FSH, LH, Progesterone and Testosterone were immunologically analyzed and statistically analyzed which proves that Pergularia daemia shows significant result when compared to the Citrullus colocynthis whose P value is (P <0.5). Thus we conclude that P. daemia is an effective herbal medicine that balances the hormonal levels and cures PCOS effectively.