This article describes the most important research published on amino acid (AA) analysis using CE during the period from June 2011 to May 2013, and follows the format of the previous articles of Smith (Electrophoresis 1999, 20, 3078–3083), Prata et al. (Electrophoresis 2001, 22, 4129–4138), and Poinsot et al. (Electrophoresis 2003, 24, 4047–4062; Electrophoresis 2006, 27, 176–194; Electrophoresis 2008, 29, 207–223; Electrophoresis 2010, 31, 105–121; Electrophoresis 2012, 33, 14–35). We present new developments in AA analysis with CE, mainly describing the use of MS or LEDs for detection following conventional or enantiomeric separation developments. In addition, in an application part, we describe neurochemical or clinical studies, metabolomics for plant extracts and biological fluids, and finally works focused on AAs in food and agricultural applications.