This study was conducted to determine the potential utilization of microfiltration (MF) membrane in separating functional compounds from beetroot (Beta vulgaris L.) biomass as a functional drink for natural oxidation prevention. Separation was performed through MF membrane (pore size of 0.15 µm) at room temperature, flow rate ~7.5 L/min, and TMP 2 and 6 bar for 0, 5, 15, 25, and 35 minutes. The results showed that process optimization based on gallic acid as total polyphenols and acetic acid were achieved at TMP 2 and 6 bar for 35 minutes, respectively. At TMP 2 and 6 bar produced retentate with acetic acids 1.24 and 0.95%, gallic acid 0.42 and 0.41%, total solids 3.49 and 3.47%, total sugars 36.64 and 44.66 mg/mL, pH 3.11 and 3.10, and inhibiting ability of 62.45 and 58.48%, respectively, meanwhile permeate had acetic acid 0.73 and 0.82%, gallic acid 0.31 and 0.33%, total solids 3.39 and 3.38%, total sugars 40.95 and 61.56 mg/mL, pH 3.12 and 3.13, inhibiting ability of 47.62 and 52.43%, respectively. In these conditions, CF-MF is technically able to retain acetic acid (2.63-folds) and gallic acid (1.21-folds) in the retentate and increase inhibition by 25.12 and 11.25% in comparison with the initial process (0 minutes). The LC-MS analysis of permeate at TMP 2 and 6 bar for 35 minutes were predominated by monomers of acetic acid and gallic acid with MW 61.2450 Da. (M+) and 193.0327 Da. (M+Na+) and relative intensities 100 %.