Background: Patent ductus arteriosus (PDA) is commonly accompanied by premature infants and associated with an increase of comorbidity and mortality. Surgery in the operation room (OR) is more familiar with an anesthesiologist, but transportation of the premature to OR has risks of hypothermia or other unexpected events. These days, PDA ligation in the neonatal intensive care unit (NICU) is highlighted because of its advantages. We compared the postoperative outcome of PDA ligation according to the operating theater in the perspective of an anesthesiologist. Methods: A total of 9 patient who underwent PDA ligation surgery from 2007 to 2018 were enrolled and divided into two groups; Group OR: surgery at the OR, Group NICU: surgery at the NICU. Data of gestational age (GA), body weight (BW), patients’ characteristics, anesthesia and hemodynamic, total hospitalization period, and outcome were collected. Results: There were no significant differences in patient characteristics (GA, BW, PDA size, and comorbidities) and the duration of anesthesia, operation and recovery. Total hospitalization period was shorter in a group OR than NICU, but there were no significant differences in postoperative outcome. Only 1 patient has expired in a group OR. Conclusions: PDA ligation surgery in NICU has the advantage to maintain the body temperature than the surgery in the OR, and there were no significant differences in the outcome of the surgery.