The responses of metabolic networks to mineral deficiency are poorly understood. Here, we conducted a detailed, broad‐scale analysis of macronutrient concentrations and metabolic changes in the shoots and roots of cabbage (Brassica rapa L. ssp. pekinensis) plants in response to N, P, K, Ca, and Mg deficiency in nutrient solution. To standardize individual macronutrient‐deficient treatments, the concentrations of the other nutrients were maintained via substitution with other ions. Individual nutrient deficiencies had various effects on the uptake and accumulation of other mineral nutrients. Phosphorus deficiency had relatively little effect on other mineral nutrient levels compared to the other treatments. Cation deficiency had little effect on N and P concentrations but had a somewhat negative effect on the uptake or concentrations of the other nutrients. Primary metabolic pathways, such as energy production and amino acid metabolism, were greatly affected by mineral nutrient deficiency. Compared to the control treatment, soluble sugar levels increased under –N conditions and decreased under –Ca and –Mg conditions. The levels of several organic acids involved in glycolysis and the TCA cycle decreased in response to –N, –P, or –K treatment. The levels of most amino acids decreased under ‐ N treatment but increased under –P, –K, –Ca, or –Mg treatment. Mineral depletion also led to the activation of alternative biochemical pathways resulting in the production of secondary metabolites such as quinate. Notable changes in metabolic pathways under macronutrient deficiency included (1) a quantitative increase in amino acid levels in response to Mg deficiency, likely because the restriction of various pathways led to an increase in protein production and (2) a marked increase in the levels of quinate, a precursor of the shikimate pathway, following cation (K, Ca, and Mg) deficiency. These findings provide new insights into metabolic changes in cabbage in response to mineral deficiency and pave the way for studying the effects of the simultaneous deficiency of more than one macronutrient on this crop.