In the polar region, the gravity vector and Earth's rotation vector tend to be in the same direction, leading to slower convergence speed and longer alignment time of the moving base alignment. When the alignment time is short, the alignment cannot converge, resulting in low azimuth accuracy. To address this issue, we propose a polar moving base alignment method based on backtracking scheme. Notably, this work first derives a polar coarse alignment method with the inertial frame based on the transverse Earth model. On this basis, we design a polar coarse alignment method based on backtracking scheme and optimize the data storage scheme. Then, an inverse navigation algorithm based on the transverse inertial navigation mechanical arrangement scheme was derived, and a polar fine alignment method based on backtracking scheme was designed. Semi-physical simulation experiments showed that the alignment algorithm based on backtracking scheme can converge in a short time with high alignment accuracy.