Newborn Screening (NBS) is considered the need of the hour for quality health in neonates. It is also important to understand that the rising trend of prevalence of inherited metabolic disorders and the various maternal factors that might influence genetic changes in the foetus in-utero affecting the neonatal outcome. The cross-sectional study was conducted on 1282 neonates of 48 hours up to eight weeks of age. The Dried Blood Spot (DBS) specimens collected were analysed for Thyroid Stimulating Hormone (TSH) level and G6PD enzyme activity using immunofluorescence method as per the kit based protocol provided by Labsystems Diagnostics Oy, VANTAA, Finland. The prevalence of CH and G6PD were respectively 3.3/1000 and 6.6/1000 making the overall prevalence of metabolic disorders as 9.8/1000. During the study, babies born by caesarean section showed twice the chances for screening positive for TSH.