Nutritional insecurity has become a major concern for the ever-growing world population. Millets, the small-seeded cereal crops, are predominantly cultivated in Asia and Africa and are an excellent alternative to major staple foods because of minimal water requirement, stress tolerance, adaptation to marginal lands, and nutritional superiority compared to other cereal crops. Marker-assisted breeding with the next-generation sequencing (NGS) approaches can speed up the genomic selection for the germplasm resource analysis, allele mining, QTL mapping, genome-wide marker-trait association, gene tagging, and fine mapping for the millet improvement. There is a need to focus on advanced omics and genomics studies in millets to understand the molecular regulation of important traits and their transfer to other staple cereals for improvement. Efficient transformation and genomic resources will have to gain momentum for successful genome editing in millets. This chapter provides an outlook on the use of marker-assisted selection, genome editing, and omics methods in minor millets for nutrient fortification and the creation of climate-resilient millets with improved nutritional benefits.