Background: Dyslipidemia is the common complication in rheumatoid arthritis (RA) patient, and subsequently increased CVD risk. Dyslipidemia is the net result between positive intake of lipids and clearance by autophage. Objective: The aim of this work is to evaluate the effect of autophages function as clearance of dyslipidemia in two different lines of active RA treatment. Patients and methods: This study was carried out at Agouza Police Hospital. It was analysis of data from one hundred and twenty individuals who were admitted to the hospital. Their age ranged from 40-65 years. They were 84 females (70%) and 36 males (30%) healthy and patient with rheumatoid arthritis attending the outpatient clinic and the inpatient of the Department of Rheumatology. Results: There was significant increase of cholesterol in group 2, 3, and 4. There was significant increase of LDL in group 2 and 4 while it decreased in group 3 which showed significant increase in HDL. There was significant increase of disease activity (DAS-28) in group 2, 3, and 4. The autophage function showed significant increase in all groups and this could be secondary increase of phagocytosis through the action of cytokines and defect of digestion secondary to therapeutic drugs. Conclusion: Methotrexate is immunosuppressive drug could be the one of the famous immunosuppressive drugs in RA that is completely responsible for dyslipidemia.