Background: BKKBN reported that implant as a long term method of contraception was the most widely used among new users in 2012. The contraceptive action is mainly by inhibition of ovulation and production of estrogen is supressed. Estrogen is one of the most important factors related to bone remodelling. Thus, it has raised concerns regarding the adverse effect of long term use of this contraceptive method on the bone status of women who use them. So, it is necessary to study the effects of long term use of progestogens on bone mineral density. Objective: Comparing bone mass density in contraceptive implant users and non-hormonal users. Methods: Cross sectional study. This study was conducted in Kontap, outpatient department, Sardjito Hospital in August-December 2013. The participants' age were 20-50 years who met the inclusion criteria and regardless of the exclusion criteria. Total of 110 women were divided into 2 groups, contraceptive implant users and nonhormonal contraceptive users. Bone mass density was measured using ultrasound densitometry on the calcaneus bone. Results: Bivariate Chi-square analysis showed that there was no significant association between the use of the contraceptive implant with incidence of abnormal bone density (RP 1.75;, p = 0.23). BMI as confounding variable provide a significant relationship with bone density with OR 23.24; 95% CI (4.26 to 126.86), p <0.001 Conclusion: In this study, there was no significant difference of bone mass density between contraceptive implant group and non hormonal group. BMI were significantly related to bone mass density.