This study examined the effect of magnetized water in comparison with water put in microwave on bone minerals. The 21 total number of albino rats was separated to three groups formed of 7 rats each. The first group is a control group, the rats drank a normal tap water. The second group is a magnetized water group, the rats drank a magnetic water. The third group is a microwave water group, the rats drank a tap water treated by a microwave oven. The rats in three groups drank water for two months. The result of this study revealed to high significant differences between magnetic water group and both other groups in calcium and phosphorus mineral content in mandible bone by SEM/EDX. Also magnetic water group had a significant difference with microwave water group when measure the intensity of Von Kossa special stain. In conclusion the magnetic water had a good effect on bone mineral and density.