Abstract Aqueous two-phase systems (ATPS) are universally recognized as an excellent alternative to the conventional separation techniques in the biotechnology, because of their undoubted advantages such as mild and biocompatible conditions, high water content, low interfacial tension, ease of process integration and scale up, etc. The formation of ATPS is due to the incompatibility of two polymers in a common solution. Other types of ATPS are formed by polymer/salt, ionic and/or non-ionic surfactants, inorganic salt/short-chain alcohols, and based on room temperature ionic liquids. ATPS are successfully used (even in large scale) for cells, enzyme and protein separation, while their application for recovery of small molecules such as organic acids, antibiotics, alcohols is more complicated as they are usually hydrophilic and tend to distribute evenly between the phases. The purpose of this paper is to overview and summarize the efforts made for the application of different types of ATPS for the separation of organic acids.