Background—We aimed to investigate the clinical efficacy and safety of transurethral flexible ureteroscope incision and drainage combined with Holmium laser for the treatment of parapelvic renal cysts.Methods—The clinical data of 65 patients with parapelvic renal cysts were retrospectively analyzed between October 2017 and April 2021. Among them, 31 patients with parapelvic cysts (group 1) underwent a transurethral flexible ureteroscope incision and drainage combined with Holmium laser, and the other 34 patients (group 2) underwent retroperitoneal laparoscopic unroofing. The clinical characteristics of patients were recorded. The surgery time, intraoperative blood loss, hospitalization time, complications and cyst size at 1 year postoperatively were recorded and statistically analyzed.Results—All patients were successfully treated with flexible ureteroscope incision and drainage or retroperitoneal laparoscopic unroofing. No statistically significant difference was found between group 1 and 2 in terms of clinical characteristics, including age, gender, body mass index (BMI), location, cyst size, and Bosniak classification of renal cysts. Group 1 demonstrated shorter surgery time, less intraoperative blood loss, and shorter hospitalization time than the control group (group 2) (p < 0.001). However,no significant differences in complications and cyst size at 1 year postoperatively was observed between the two groups (p > 0.05).Conclusions—The transurethral flexible ureteroscope incision and drainage with Holmium laser for the treatment of parapelvic renal cysts has obvious advantages over traditional surgery, and is worthy of promotion and application, but its long-term effect needs further follow-up.