Background: To compare the kinematic characteristics of hindfoot joints in stage Ⅱ adult acquired flatfoot deformity (AAFD) with those of normal foot through the 3D-to-2D registration technology and single fluoroscopic imaging system.Methods: CT scans were performed on the bilateral feet of 7 normal volunteers and 8 volunteers with stage Ⅱ AAFD in neutral positions. Their lateral dynamic X-ray data during the stance phase, including 14 normal feet and 10 flatfeet, was collected. A computer-aided simulated light source for 3D CT model was applied to obtain the virtual images, which were matched with the dynamic X-ray images to register in the “Fluo” software, so that the spatial changes during the stance phase could be calculated.Results: During the early-stance phase, the calcaneous was more dorsiflexed, everted, and externally-rotated relative to the talus in flatfoot compared with that in normal foot, and the difference is statistically significant (p<0.05). During the mid-stance phase, the calcaneous was more dorsiflexed and everted relative to the talus in flatfoot compared with that in normal foot, and the difference is statistically significant (p<0.05); however, the rotation did not differ significantly between the two groups (p>0.05). During the late-stance phase, the calcaneous was more plantarflexed, but less inverted and internally-rotated, relative to the talus in flatfoot compared with that in normal foot, and the difference is statistically significant (p<0.05). During the early- and mid-stance phase, the navicular was more dorsiflexed, everted, and externally-rotated relative to the talus in flatfoot compared with that in normal foot, and the difference is statistically significant (p<0.05). During the late-stance phase, the navicular was more plantarflexed, but less inverted and internally-rotated, relative to the talus in flatfoot compared with that in normal foot, and the difference is statistically significant (p<0.05). There was no difference in the motion of cuboid between the two groups during the whole stance phase (p>0.05).Conclusions: During the early- and mid-stance phase, excessive motion was observed in the subtalar and talonavicular joints in stage Ⅱ AAFD. During the late-stance phase, the motion of subtalar and talonavicular joints appeared to be in the decompensated state. During the whole stance phase, the motion of calcaneocuboid joint showed no significant difference between normal foot and stage Ⅱ AAFD.