LiMn2O4, a cathode material of lithium ion battery, was prepared by the citric acid complexing method using lithium acetate and manganese acetate as raw materials. The type of atom location confused degree, the confused degree and judgement method in LiMn2O4 were analyzed. The effect of sintering temperature on structure and electrochemical properties of LiMn2O4 was also investigated. The results show that the atom location confused degree increases with the decrease of the X-ray diffraction peak intensity ratio of LiMn2O4, I111/I311. The type of atom location confused degree depends on the variation tendency of I111/I311 and I311/I400 value. If the variation tendency is the same, it belongs to the 16c type location confusion, however, if the variation tendency is contrary, it belongs to the anti-spinel type location confusion. When the sintering temperature is low, it is apt to produce the anti-spinel location confusion in LiMn2O4. With the increase of sintering temperature, the confused degree with the anti-spinel type gradually reduces, however, the confused degree with 16c type increases to some extent. When the atom location confusion with the anti-spinel type appears in LiMn2O4, both the initial discharging capacity and cycling properties of LiMn2O4 reduce. However, the atom location confusion with 16c type does not affect the charge and discharge properties of LiMn2O4.