Purpose: The aim of the study was to compare salivary cortisol and -amylase levels and psychological profiles in patients with burning mouth syndrome (BMS) and healthy subjects. Methods and Materials: Spitting method was used to collect unstimulated salivary. Salivary cortisol and -amylase levels were determined using ELISA and the Caraway starch-iodine technique. SLC-90 questionnaire was used to determine the psychological profiles. Results: The difference between mean of salivary cortisol levels in patients with BMS and in healthy subjects was not significant (4.50 3.68 ng/mL vs. 3.69 +/- 3.07 ng/mL, p = 0.377). The difference between mean of -amylase levels in the BMS patients and healthy subjects was significant (351.68 +/- 142.5 and 146.22 +/- 130.4, p = 0.001). Note that, 83.4% and 18% of the patients in the case and control groups had psychological problems (p = 0.001). Conclusion: The results showed higher salivary levels of cortisol and -amylase in patients with BMS compared to healthy individuals. Psychological problem was prevalent in patients.