Objective To investigate the therapeutic application of neuroendoscopic techniques in pediatric intracranial cystic fluid disorders and the synergistic completion of surgical treatment of complex intracranial malformations in pediatric patients in combination with craniotomy and shunt surgery. Methods From February 2004 to February 2009, 105 children, aged 3 months to 12 years, underwent endoscopic surgery. Including 53 cases of obstructive hydrocephalus, of which 51 cases successfully completed endoscopic triple ventriculostomy. Among the 52 cases of intracerebral cysts, 28 cases of temporal lobe cysts underwent microscopic partial dissection of the cyst wall and cerebral pool opening, 5 cases of hyaline septal cysts and 5 cases of lateral ventricular cysts underwent cyst-ventriculostomy, 3 cases of suprasellar and triventricular cysts underwent cyst dissection + triventricular base stoma, and 6 cases of subscopic cysts: 1 case of endoscopic dissection and 5 cases of giant cysts combined with hydrocephalus underwent endoscopic combined with shunt or open microscopic dissection. There were 5 cases of supratentorial midline site cysts, 4 cases of partial dissection of cysts + open window, and 1 case of multiatrial tapping combined with cystic ventral shunt. Results Among 51 cases of hydrocephalus, 47 cases showed improvement in clinical symptoms after surgery. 52 cases of intracranial cysts, with a follow-up of 2 months-3 years after surgery, showed an overall shrinkage rate of 98% and a 100% shrinkage rate of temporal lobe cysts. 11 cases had subdural fluid after surgery, 7 cases improved with follow-up, 4 cases developed chronic subdural hematoma 4 months-1 year after surgery, which was healed after external drainage, and 1 case with combined central infection was abandoned for treatment. Conclusion Endoscopic surgery is effective in the treatment of intracranial cystic fluid disorders in pediatric patients and can be preferred.