The mean values of Cirrus automatic CRT were 271 ± 87.3 μm (range, 34–514) and 265.1 ± 77.39 μm (range, 20–474), in the first and second examinations, respectively. The mean Spectralis values were 370.9 ± 105.4 μm (range, 195–708) and 369.3 ± 102.2 μm (range, 193–729), respectively. In 84.4% of the automatically recorded Spectralis examinations with RPE detachment, the posterior line was placed at Bruch's membrane, in 44.4% of those there were line failures. When the signal of Bruch's was weak, the posterior line followed the RPE (15.6%), but always with failures. In 92.8% of the scans, the foveal finder in Cirrus failed to detect the fovea; in 6.3%, the fovea was identified correctly; and in 0.9%, the peak of an RPE detachment was misinterpreted as the fovea. Therefore, manual correction of centralization was required. Corrected segmentation and location failures resulted in 296.4 ± 98.5 and 292.5 ± 93.7 μm, respectively, with the Cirrus. For Spectralis, 394.3 ± 115.4 and 394.0 ± 114.0 μm, respectively, were calculated when the posterior line was corrected at Bruch's membrane and 345.2 ± 92.3 and 344.7 ± 94.6 μm, when corrected at the RPE. The mean difference of the corrected values between Spectralis (posterior line at the RPE) and Cirrus were 36.4 ± 27.2 and 38.0 ± 27.7 μm, for the first and second examinations, respectively. The linear model revealed a significantly positive correlation between the mean of the two repeated measurements of the corrected CRT of the Cirrus and Spectralis (P < 0.0001); the following conversion formula was used [95% CI]: CRT Cirrus = −25.760 [−43.942 to −7.578] + 0.966 [0.913–1.018] × CRT Spectralis (df = 108).