Neonatal maternal separation (MS) in rats has been reported to result in permanent dysfunctions of the hypothalamic-pituitary-adrenal axis and the development of anxiety- and depression-like behaviors later in life. In this study, we examined the effects of post-weaning social isolation stress on food intake and body weight gain of rats with MS experience. MS was performed daily for 180 min during the first 2 weeks of birth and nonhandled control (NH) pups were left undisturbed. Weanling male pups were caged either in a group of three or singly (social isolation), and then subjected to behavioral sessions for anxiety- or depression-like behaviors at 2 months of age. Social isolation following MS experience, but neither MS nor social isolation alone, significantly increased food intake and weight gain. MS pups showed increased immobility in forced swim test, compared to NH pups, regardless of their housing conditions. In elevated plus maze test, group-caged MS pups spent less time in the open arms and more time in the closed arms than group-caged NH pups, but social isolation did not further affect the arm stay of MS pups. However, statistical analyses revealed an interaction between MS and social isolation not only in the time spent in each arms, but also in defecation scores during the ambulatory activity test. These results suggest that post-weaning social isolation may promote hyperphagia and weight gain in young rats that experienced neonatal maternal separation, perhaps, in relation with its impact on the psycho-emotional behaviors of MS pups.