The aggregation behavior of nonyphenyloxypropyl beta-hydroxyltrimethylammonium bromide (C9phNBr) and xanthan (XC) in aqueous solution was investigated by MesoDyn density functional simulation and binding isotherm measurement. The process of aggregate formation and the aggregate morphology are reported. The formation of aggregates includes three stages and the morphology of XC-C9phNBr aggregates is rodlike or ellipsoidal. The effects of temperature and XC concentration on the aggregation are analyzed. Results indicate that the formation of aggregates is an exothermic process, and their formation becomes more difficult and the formation rate decreases with increasing temperature. The formation of aggregates is also related to XC concentration, and it becomes much more difficult when the concentration of XC is higher than 20 vol %. The simulation results agree with binding isotherms of C9phNBr to XC obtained via the potentiometric titration method, which shows a typical cooperative binding between C9phNBr and XC.