Pyrimidine constitutes an important class of heterocycles in drug discovery and is very well known for their pharmacological activities. Pyrimidines and their derivatives possess biological and pharmacological activities such as antibacterial, antifungal, anti-inflammatory, analgesic, anticonvulsant, antitubercular, anti-cancer, etc. properties. Azomethines are the compounds, which contain –HC=N- group. These compounds are known as Schiff” base to honor Hugo Schiff, who synthesized these compounds first. Schiff” bases, an important group of compounds, play a vital role in pharmaceutical as well as in clinical fields. Schiff”s bases containing Pyrimidine derivatives have attracted attention of medicinal chemistry for both with regard to heterocyclic chemistry and the pharmacological activities associated with them, inspired us to synthesize Methyl-2-[2-(arylidine)hydrazinyl]-4-(4-fluorophenyl)-6-isopropylpyrimidine-5-carboxylate by reaction of methyl-4-(4-fluorophenyl)-2-hydrazinyl-6-isopropylpyeimidine-5-carboxylate with various substituted benzaldehydes in presence of catalytic amount of acetic acid using ethanol as a solvent. The synthesized compounds were characterized by elemental analysis, FT-IR, 1H-NMR and Mass spectral studies and in vitro antimicrobial activities were evaluated. Antimicrobial data revealed that among all the compounds screened, many compounds were found to have promising antimicrobial activity.