The aim of this study was to improve the physicochemical stability of neohesperidin (NH) using nanoliposomal encapsulation in association with surface decoration strategy employing chitosan (CH) and pectin (P). Different nanoliposomal systems, i.e. NH-loaded nanoliposome (NH−NL), CH-coated NH-NL (CH-NH-NL), and P-coated CH-NH-NL (P-CH-NH-NL) were characterized through DLS, HPLC, TEM, and FTIR. The results confirmed good encapsulation efficiency (>90%) and successful layer formation with nano-sized and spherical carrier. Both CH-NL and P-CH-NL exhibited better physicochemical stability than NL under storage, thermal, pH, ionic, UV, oxidative, and serum conditions. In vitro mucin adsorption study revealed that CH-NL (60%) was more effective in mucoadhesion followed by P-CH-NL (46%) and NL (41%). Furthermore, P-CH-NL showed better performance in NH retention under different food simulants compared to CH-NH-NL and NH-NL, in which the release was mainly governed by the diffusion process. Thus, the P-CH conjugated nanoliposome could be a promising nano-carrier for neohesperidin.