In this study, effect of plant sources viz. Gossypium hirsutum, Coriander sativum, Murraya koenigii and Dalbergia sisso on twelve physico-chemical properties, phenolic content, flavonoids content as well as on trace mineral (Fe, Cu, Ni, Mn, Cd and Pb) contents of honey were investigated and compared. All the physico-chemical values were in the range of approved limits of European Commission Regulation and the source of honey had a significant (P < 0.05) effect on physico-chemical properties, phenol content, flavonoid content and trace mineral content. The results of positive correlations between physico-chemical properties (colour and antioxidant properties) and compositional components (phenols and flavonoids content) established that antioxidant properties were dependent on source of honey rather than on colour of honey. Pattern recognition methods such as principal component analysis and linear discriminate analysis were performed to classify honey on the basis of physico-chemical properties, phenolic content, flavonoids content and trace metal content. The variables proline and lead exhibited higher discrimination power.