Fungal pathogens exert severe qualitative and quantitative damages to wheat crop. Karnal bunt of wheat caused by Tilletia indica Mitra, Mundkur is a severe threat to global food security. Nonetheless, T. indica is regulated as a quarantine pest in numerous countries, which further aggravates the situation. Tolerant varieties and appropriate management practices for Karnal bunt are imperative to meet the global wheat demands. This two-year study explored the impact of fungicide [Fosetyl-Aluminium (Aliette)] application timing on allometric traits, disease suppression and economic returns of bread wheat. Four bread wheat cultivars differing in their tolerance to Karnal bunt were used in the study. Fungicide was applied as either seed treatment (ST), foliar application at heading (FAH) or ST + FAH, whereas no application (NA) was taken as control. Lasani-08 performed better than the rest of the cultivars in terms of allometric traits (plant height, leaf area, crop growth rate, photosynthesis, and chlorophyll content), yield and economic returns. Nonetheless, minimal disease severity was recorded for Lasani-08 compared to other cultivars during both years. The ST improved allometric traits of all cultivars; however, ST + FAH resulted in higher yield and economic returns. Cultivar Pasban-90 observed the highest disease severity and performed poor for allometric traits, yield and economic returns. It is concluded that ST + FAH of Fosetyl-Aluminium could be a pragmatic option to cope Karnal bunt of wheat. Nonetheless, Pasban-90 must not be used for cultivation to avoid yield and quality losses.