The present study was undertaken to investigate the factors influencing the academic performance of the female medical students in the preclinical (2 nd and 3 rd year) and clinical years (4 th and 5 th years).A crosssectional study was carried out involving 100 female medical students (preclinical and clinical) in Northern Border University. A comprehensive questionnaire was used to evaluate the factors influencing their academic performance. A comparison was done between the factors influencing the academic performance of the preclinical and the clinical students. The strongest positive factors which influenced the academic performance of all the female medical students were the facility available for study, family support, and awareness about the medical course. Anxiety and stress and lack of sleep were the strong negative factors in both. There was significant difference between preclinical and clinical students regarding the time for self-study (p<0.05) and lack of sleep (p<0.05). Although the strongest positive factors and negative factors were similar in both preclinical and clinical students, there was variation in factors like English skills, personal time, family time and time for self-study. There was an increase in the English language skills, competition in studies and time for self-study in the clinical students when compared to the preclinical students, though the difference was not statistically significant.