The aggregation and location of morin in CTMAB micellar solution was studied by light scattering spectra, electronic absorption spectra and pulsed FT NMR techniques. The difference in the light scattering property of morin with and without CTMAB proved that a large particle of the morin–CTMAB associate formed. Morin has a self-assembly tendency, but the assembly number is not high. With the increase of morin concentration, morin changed from a monomer to dimer. The hyperchromic and bathochromic effect of morin, with the increase in pH value or CTMAB concentration indicated that CTMAB provided a base microenvironment. The changes in the chemical shifts of the individual groups of protons in CTMAB indicated that the solubilization location of morin changes from the inner to the outer of the CTMAB micellar with an increase in morin concentration.