Molecularly imprinted polymers (MIPs) are tailor-made synthetic polymers with a predetermined selectivity for a given analyte, or group of structurally related compounds, that make them ideal materials for use as stationary phases in affinity chromatography. However, extensive peak broadening and tailing, especially of the more retained compound (normally the template) are often observed. Thus, huge efforts have been made during recent years to use MIPs in capillary electrochromatography, which is inherently a more efficient chromatographic technique than conventional HPLC. Accordingly, this paper gives an overview of the attempts carried out in the recent past to improve the chromatographic performance of MIPs in capillary electrochromatography as well as more recent applications. It is concluded that MIPs are very promising materials for use as selective stationary phases in CEC.