The effect of natural antibiotics Moringa oleifera seeds powder in cellulose acetate membranes as biofouling reducer agent was investigated. Mixed matrix membranes (MMM) were synthesized by adding 100 mesh M. oleifera seeds powder with variation of three concentrations (1 wt%, 2 wt%, and 3 wt%), into a mix polymer solution of CA (cellulose acetate) and two different solvents, i.e., DMF (dimethylformamide) and DMAc (dimethylacetamide). The synthesized membranes morphology was observed under scanning electron microscopy and from the images can be seen that the membranes made of DMAc formed rather large macrovoid as compared to DMF-based membranes. The microstructure affected the water flux through the membranes, in which the DMAc membranes provided a higher flux value and served as high-throughput microfiltration membranes. Antibacterial properties of MMM were tested using Escherichia coli adhesion onto membrane surfaces. The results showed that M. oleifera has been proven to eradicate E. coli activity on the membrane surfaces due to interaction between bacterial cells and phenolic compounds from M. oleifera, through absorption processes involving hydrogen bonds.