The design and development of an automated flow injection instrument for the determination of arsenite ͓As͑III͔͒ and arsenate ͓As͑V͔͒ in natural waters is described. The instrument incorporates solenoid activated self-priming micropumps and electronic switching valves for controlling the fluidics of the system and a miniature charge-coupled device spectrometer operating in a graphical programming environment. The limits of detection were found to be 0.79 and 0.98 M for As͑III͒ and As͑V͒, respectively, with linear range of 1 -50 M. Spiked ultrapure water samples were analyzed and recoveries were found to be 97%-101% for As͑III͒ and 95%-99% for As͑V͒, respectively. Future directions in terms of automation, optimization, and field deployment are discussed.