The aim of the study was to evaluate the problem of stunting and associated risk factor of stunting in Pakistan and explore significant factors of stunting using robust estimates of regression parameters. We conducted secondary data analysis taken from Pakistan Demographic and Health Survey (PDHS) 2013. Eleven thousand and seven hundred children of under-five year of age. Multiple linear regression analysis with robust standard error were used for assessing the relationship between stunting and selected variables like region (provinces), areas (rural and urban), breast feeding, age of mother, and socio economic status. Variance inflation factors (VIF) and white’s test were used for testing multi collinearity and homo scedasticty before fitting the regression model. The study explored that significant factors that affect stunting are mother’s education, breastfeeding, and region. It is concluded that problem of stunting is significantly different over regions (provinces) and areas. In urban areas, the regions as well as mother’s education were significant factors. Whereas, regions and months of breastfeeding greatly effecting the prevalence of stunting in rural areas. The major factors that are associated with stunting were duration of breast feeding, mother’s education and regions in Pakistan. Our findings give a baseline for concerns and assessment with future studies.