Microfiltration is a type of physical filtration process where a contaminated fluid is passed through a special pore-sized membrane to separate microorganisms and suspended particles from process liquid. It is commonly used in conjunction with various other separation processes such as ultrafiltration and reverse osmosis to provide a product stream which is free of undesired contaminants.

Microfiltration usually serves as a pre-treatment for other separation processes such as ultrafiltration, and a post-treatment for granular media filtration. The typical particle size used for microfiltration ranges from about 0.1 to 10 μm. In terms of approximate molecular weight these membranes can separate macromolecules of molecular weights generally less than 100,000 g/mol. The filters used in the microfiltration process are specially designed to prevent particles such as, sediment, algae, protozoa or large bacteria from passing through a specially designed filter. More microscopic, atomic or ionic materials such as water (H2O), monovalent species such as Sodium (Na+) or Chloride (Cl−) ions, dissolved or natural organic matter, and small colloids and viruses will still be able to pass through the filter.

The most prominent use of microfiltration membranes pertains to the treatment of potable water supplies. The membranes are a key step in the primary disinfection of the uptake water stream. Such a stream might contain pathogens such as the protozoa Cryptosporidium and Giardia lamblia which are responsible for numerous disease outbreaks. Both species show a gradual resistance to traditional disinfectants (i.e. chlorine). The use of MF membranes presents a physical means of separation (a barrier) as opposed to a chemical alternative. In that sense, both filtration and disinfection take place in a single step, negating the extra cost of chemical dosage and the corresponding equipment (needed for handling and storage).

Similarly, the MF membranes are used in secondary wastewater effluents to remove turbidity but also to provide treatment for disinfection. At this stage, coagulants (iron or aluminum) may potentially be added to precipitate species such as phosphorus and arsenic which would otherwise have been soluble.