Metabolic syndrome is a multifactorial disorder characterized by obesity, dyslipidemia, hypertension and 2nd type diabetes. Three of which can set the diagnosis, and may be complicated by cardiovascular disease and disturbed fertility. Spirulina platensis (SP) and Bifidobacterium longum (BL) have beneficial effect to control these disorders. Aim of study was to prepare edible microencapsulated SP and BL to study its possible role to control metabolic syndrome and associated disorders in female rat model. Twenty eight female rats were divided into 4 groups, 7 each. The first group (G1) was fed on high fat diet (HFD), G2 received HFD plus encapsulated BL (108 CFU/ml), G3 fed on HFD plus both encapsulated SP and BL. Animals of G4 received basic diet only. Blood glucose and body weight were monitored weekly. After 8 weeks, animals were sacrificed and blood samples were collected for analysis of glucose, cholesterol, LDL, HDL, triglycerides, leptin, oestrogen, Malondialdhyde (MDA), catalase, Zinc and phosphrous. Histological examination was done for liver, kidneys, heart and ovaries. Abdominal and body fat were collected for adiposity index estimation. Results revealed that animals fed on HFD (G1) showed the clinical signs of metabolic syndrome like hyperglycemia, obesity, and dyslipidemia compared to control (G4). The examined sections of liver, kidney, heart and ovaries showed abnormal histopathological changes. Administration of the prepared microcapsules took all the changes back towards normal with improvement of histopathological findings. It was concluded that Sp has synergistic effect with BL in possible controlling of metabolic syndrome and its associated disorders in female rat model.