Objective: To study the value of multi-slice CT(MSCT) in the diagnosis of esophageal atresia and tracheoesophageal fistula(EA-TEF) in neonate. Methods: Twelve patients suspected to have EA-TEF were examined by MSCT. Multi-planar reformation(MPR), minimum intensity projection(MinIP), volume-rendered image(VR), and virtual endoscope(VE) were reconstructed at workstation. Two experienced radiologists overviewed the images and were related measurements. Results: There were 11 cases of type Ⅲ EA-TEF(including 1 case of type Ⅲa, 10 cases of type Ⅲb) and 1 case of type Ⅳ. Six patients had 6 types of congenital malformations. Conclusions: MSCT and reconstruction images has great value in diagnosing, typing, searching fistula of EA-TEF disease and could evaluate lung condition and related malformations.