Objectives The study objective was to evaluate the tooth position of maxillary permanent canines in German orthodontic patients with non-syndromic cleft lip and/or palate and Robin sequence compared to a control group without. Materials and Methods A total of 116 panoramic radiographs were included and divided into group 1 craniofacial disorder (n = 50) and group 2 without (n = 66). In order to evaluate the position of maxillary canines, radiographic parameters (sector subdivision; inclination angle) were used. Additionally, clinical records, parameters like sex, cleft localization, interobserver reliability were evaluated. Results The canine position in sector subdivision showed no position in sector 1 and 2. The most common canine sector position in group 1 was sector 5 in the first quadrant and sector 4 in the second and group 2 sector 5 in both quadrants. Inclination angle showed statistically significant displacement tendency (p = 0.015) of 11 cases in group 1 and 6 in group 2 of the right sided canines. There was a significantly difference in (p = 0.0259 (χ2))between cleft and non-cleft side in the inclination of the maxillary canine. In total four cases showed a displacement tendency of the maxillary canine, two in the cleft and two in the non-cleft side. Success rate of orthodontic alignment was 100%. Conclusion Displacement tendency of the maxillary canine in patients with craniofacial disorder is higher. Clinical Relevance Radiographic evaluation enables the diagnosis of displaced teeth. A rigorous monitoring of canine eruption position is imperative and important to consider in the long lasting and comprehensive orthodontic treatment planning in craniofacial disorder patients.