Banana (Musa spp.) is an ancient and popular fruit plant with highly nutritious fruit. The pseudo-stem of banana represents on average 75% of the total dry mass but its valorization as a nutritional and industrial by-product is limited. Recent advances in metabolomics have paved the way to understand and evaluate the presence of diverse sets of metabolites in different plant parts. This study aimed at exploring the diversity of primary and secondary metabolites in the banana pseudo-stem. Hereby, we identified and quantified 373 metabolites from a diverse range of classes including, alkaloids, flavonoids, lipids, phenolic acids, amino acids and its derivatives, nucleotide and its derivatives, organic acids, lignans and coumarins, tannins, and terpene using the widely-targeted metabolomics approach. Banana pseudo-stem is enriched in metabolites for utilization in the food industry (L-lysine and L-tryptophan, L-glutamic acid, Phenylalanine, Palmitoleic acid, alpha-Linolenic acid, and Lauric acid, and Adenine) and pharmaceutical industry (Guanosine and Cimidahurinine, Bergapten, Coumarins, Procyanidin A2, Procyanidin B1, Procyanidin B3, Procyanidin B2, and Procyanidin B4, Asiatic acid). The metabolome of banana pseudo-stem with integration across multiomics data may provide the opportunity to exploit the rich metabolome of banana pseudo-stem for industrial and nutritional applications.