The effect of application of micronutrients viz. zinc, boron and molybdenum on the biochemical and nutritional quality of chickpea variety Avarodhi was studied during 2012–13 and 2013–14. The application of zinc @ 5.0 kg ha−1 increased grain protein to 21.21% and protein yield to 470.69 kg ha−1. Tryptophan of grain increased significantly on application of zinc, whereas methionine was not affected on zinc application either at 2.5 or 5.0 kg ha−1. Similarly, the application of boron @ 2.0 kg ha−1 gave the highest values of protein (20.65%), protein yield (450.35 kg ha−1), tryptophan (0.75 g/100 g protein) and ash content (2.99%), whereas methionine and lipid content were not affected. Application of molybdenum @ 400 g ha−1 increased the protein content of grain as well as total protein yield and tryptophan contents significantly. The carbohydrate decreased significantly with increasing levels of zinc, boron and molybdenum. Zinc application @ 5.0 kg ha−1 increased potassium, sulphur and zinc contents of grain significantly. Boron when applied @ 2.0 kg ha−1 and molybdenum @ 400 g ha−1 increased phosphorus, potassium, sulphur, boron and molybdenum contents of grain significantly.