Polycystic ovarian syndrome (PCOS) is a common health issue that affects women of reproductive age. One significant factor linked to PCOS is dyslipidaemia, which refers to abnormal lipid levels in the blood. Women with PCOS often have high levels of low-density lipoprotein (LDL) and triglycerides, as well as low levels of high-density lipoprotein (HDL). These lipid changes increase the long-term risk of heart disease. This study aims to compare lipid levels in women with PCOS to those in healthy women. Methods: This study was conducted in collaboration with the esteemed Department of Obstetrics and Gynaecology of the Faculty of Medicine and Health Sciences located in Indore, Madhya Pradesh. A total of 98 participants were involved, comprising a diverse group of individuals aged between 18 to 45 years. This cohort was evenly split, consisting of 49 healthy control subjects and 49 individuals who had been clinically diagnosed with Polycystic Ovary Syndrome (PCOS). The aim was to explore the physiological aspects of this condition within a well-defined population. Results: The mean ± SD of age in the cases was 27.83 ± 5.28 years, and in the control, it was 26.84 ± 5.18 years. Most cases were from Rural areas, which comprised 53%, and only 47% were from Urban areas. The mean ± SD for TG, LDL, and TC were 293.57 ± 16.25 mg/dL, 159.63 ± 14.87 mg/dL, and 234.21 ± 26.29 mg/dL, respectively. These values were higher in cases compared to controls, and the difference was statistically significant. However, the mean±SD of HDL in cases 44.21±6.79 mg/dl was lower as compared to controls, and the difference was statistically significant with p<0.001. Conclusion: PCOS is closely linked to a lipid profile that increases the risk of cardiovascular disease. To mitigate this risk, it’s essential to adopt healthy dietary habits and lifestyle changes early on. By prioritizing nutrition and wellness, individuals can significantly improve their health and reduce the likelihood of developing heart-related issues.