The purpose of this study is to evaluate and contrast the surgical efficacy of the karydakis flap and the limberg flap in the treatment of pilonidal sinus. Materials and Methods: The research consisted of a total of fifty different participants. Group A consisted of 25 patients who were going to have the karydakis flap treatment done, and Group B consisted of 25 patients who were going to have the limberg flap procedure done. Participants were only considered for inclusion in the trial if they had a diagnosis of pilonidal sinus, were between the ages of 16 and 62, and gave their agreement to have the surgery. Individuals who had co-morbid diseases such as diabetes mellitus, immunodeficiency, abscess, recurrence, or secondary infections, as well as those who were not ready to undergo operation, were not included in the research. Results: With the Karydakis flap technique, the mean operating time was 46.25±2.85 minutes, while for the Limberg flap method, the mean operative time was 58.11±2.89 minutes. In comparison to the Limberg flap approach, the Karydakis flap method resulted in much less blood loss (75-95 ml) during the surgical procedure (85-105 ml). After the removal of the drain, the Karydakis flap had a mean length of 3.7 days, whereas the Limberg flap had a mean duration of 3.4 days. The mean amount of discomfort experienced on day one (3.91 and 6.42) and day four (2.11 and 4.25) after a Karydakis flap or a Limberg flap, respectively. In the Karydakis flap group, the average length of hospital stay was 5.11±1.1 days, which was less than the average length of stay for the Limberg flap group, which was 5.52±0.88 days. In comparison, 9 patients who had the Karydakis flap procedure performed instead of the Limberg flap method presented with a recurrence of their cancer. Conclusion: Comparable outcomes were seen for both the Karydakis flap and the Limberg flap; however, the Karydakis flap treatment demonstrated a quicker operational time and decreased blood loss. Patients who had Limberg's flap had less early post operation problems, had early pain-free toileting, and had no recurrence of the condition.