Chronic kidney disease (CKD) is becoming an important health problem worldwide. Since genetic risk factor is implicated in CKD development, this study aimed at assessing association of eNOS gene polymorphism and chronic kidney disease in Maiduguri. One hundred and forty (140) CKD patients and 70 apparently healthy controls participated in this study. Five milliliters (5ml) of whole blood were taken from each participant and sent to genetic laboratory. DNA was extracted from whole blood samples using GDSBio Blood Genomic DNA extraction kits. Then PCR and Agarose gel electrophoresis was performed to genotype Glu298 ASP, VNTR in intron4 and T786C variant of eNOS gene using special primers for three genes. In this study CKD patients had an average age of 49.51±16.7 years compared to 45.65±16.70 years for controls. Also 82 (58.57%) of CKD patients were hypertensive as compared to 26 (37.14%) control subjects. This study demonstrated significant association between eNOS gene polymorphism Glu298 ASP (P=0.000), VNTR in intron4 (P=0.000), T786C (P=0.005) and CKD. The study found significant associations between eNOS gene polymorphisms and CKD. These findings may guide clinical interventions aimed at slowing CKD progression, including the management of genetic risk factors.