Capillary electrophoresis is a new separation technique. It is an analytical technique that usually complements or replaces high performance liquid chromatography. Basic principle of the technique is the migration of charged species under applied electric field towards one of the electrodes through a narrow capillary filled with electrolyte solution. Main advantages over other chromatographic methods are short analysis time, high efficiency, small sample and solvent volumes, low costs, simplicity and ecological acceptability. Capillary electrophoresis has several modes of separation which allows analysis of different types of analytes. Capillary electrophoresis has found its application in the drug analysis of large molecules like proteins, peptides and nucleic acids, small organic molecules such as drugs, hormones, plant metabolites, food product ingredients, small inorganic ions etc. It is a method of choice when rapid results are needed. Capillary electrophoresis has become the predominant technique for the analysis of both basic and chiral pharmaceuticals, it is unavoidable in biotechnology and promises to be a valuable tool in troubleshooting in proteome-wide analysis, DNA sequencing and genotyping. Despites of all advantages and application possibilities, capillary electrophoresis is still not enough explored and used in routine analysis. A review of different capillary electrophoresis techniques principles and applications in pharmacy is presented in this article.