Background: Genital tuberculosis (GTB) is a significant contributor to female infertility. Vitamin D receptor (VDR) and vitamin D deficiency (VDD) have been linked to increased mycobacterial immunity and susceptibility to female genital tuberculosis (FGTB). Objective: The study was conducted to evaluate the association between serum vitamin D levels and ApaI and TaqI (VDR) gene polymorphisms to determine susceptibility to FGTB. Materials and Methods: In a case–control study, blood samples were collected from 150 confirmed FGTB cases. The serum vitamin D level was measured by enzyme-linked immunosorbent assay (ELISA). Total genomic deoxyribonucleic acid (DNA) was extracted and the genotyping of (ApaI and TaqI) polymorphisms was performed using amplification refractory mutation system polymerase chain reaction (ARMS-PCR). Results: According to this study, the mean serum vitamin D levels were significantly higher among healthy controls (29.04 ± 0.14) than FGTB cases (9.94 ± 0.14). The TaqI gene (C) allele frequency was found to be 60.0% in FGTB cases and 48.3% in healthy controls; the C allele was significantly associated with increased susceptibility to FGTB risk [odds ratio (OR) = 0.62; 95% confidence interval (CI); p < 0.0004]. A positive correlation was found between VDD and increased susceptibility to FGTB risk (p < 0.0001). The association between mean serum vitamin D level and frequency of TaqI gene (CC) (p < 0.0001) and (TC) (p < 0.01) was significant among cases; however, ApaI did not show a significant association with the susceptibility to FGTB risk. Conclusion: The study concluded that TaqI gene polymorphism might be associated with VDD due to VDR dysfunction, providing additional information that it might be one of the contributors to increased susceptibility to developing FGTB risk.