Background: For premature infants with advanced acute abdomen, creating a temporary enterostomy is believed to be an appropriate surgical management. However, there is no consensus regarding the timing of enterostomy reversal. Objectives: This study aimed to determine the optimal timing for stoma repair (SR) based on the analysis of SR-related complications. Methods: This was a retrospective cohort study of preterm infants who underwent enterostomy for suspected acute abdominal diseases and subsequent closure from 2007 to 2012. Results: SR-related complications occurred in 35 of 54 infants (65%). They were ventilated longer, administered more vasopressors after the operation and were more likely to undergo reoperation. Additionally, they required parenteral nutrition for more days, required more time to reach full enteral feeding, had a longer length of hospital stay after enterostomy closure and had a significantly lower weight and height at a corrected age of 7 to 10 months than infants without SR-related complications. Univariate analysis demonstrated that lower weight and younger age at the time of SR and shorter stoma duration were risk factors for SR-related complications. In a multiple logistic regression analysis, the only significant risk factor for SR-related complications was weight at the time of SR (p = 0.014). The area under the curve of weight at SR was 0.834 (95% CI: 0.72‒0.95; p 0.001), and the cut-off value was 2660 g. Conclusions: Body weight at the time of SR may be one of the most important factors to consider for minimising surgery-related complications.