The effect of some fungicides on seed mycoflora, germination, seed viability and their persistence in treated seeds of mungbean, mustard and rice was studied in vitro. The highest appearance of pathogens viz.,Alternaria alternata was recorded in seeds of mungbean (Phaseolus aureus Roxb.), A. brassicae in mustard (Brassica campestris L.) and Drechslera oryzae in rice (Oryza sativa L.). Propineb 70WP and prochloraz 45EC considerably reduced the appearance of A. alternata and flusilazole 40EC reduced Fusarium sp.in mungbean seed than untreated control.Amarked reduction in population of A. brassicae by difenoconazole 25EC and flusilazole 40EC was observed in mustard seeds. Inhibitory effect of fungicides on seed germination of all tested seeds was observed with prochloraz 45EC and flusilazole 40EC. There was increase in the plumule length of mungbean seeds with prochloraz 45EC and difenoconazole 25EC over untreated control, whereas sharp reduction in plumule length was recorded in rice seeds irrespective of fungicide treatments. The seeds treated with prochloraz 45EC and flusilazole 40EC maintained their viability up to 360 days. Irrespective of nature of inoculum, the seeds treated with prochloraz 45EC persisted longer than that of other fungicides.