Brachycephaly in cats, characterized by shortened facial and skull length and a rounder head due to inherited defects in skull bone development, can lead to respiratory and ocular problems, particularly in popular breeds like Exotic Shorthair, British Shorthair, Persian and Scottish Fold. Eye diseases in cats and dogs can result from various factors, including infectious agents, metabolic disorders, physical trauma and breed-specific congenital abnormalities, with brachycephalic cats being particularly prone to chronic corneal diseases and glaucoma due to their anatomical features. Despite challenges such as cost, the need for anesthesia and radiation exposure, understanding normal eye measurements and biometrics through imaging techniques like ultrasound, MRI and CT is essential for diagnosing eye diseases in veterinary ophthalmology. This study aimed to utilize computed Tomography (CT) images to measure intraocular structures in healthy cats with varying skull structures and establish the correlation between these measurements and skull morphometric data. In the study, a total of 24 cats from brachycephalic and 27 cats from non-brachycephalic breeds (both sexes) were included. Two- dimensional CT scans of cats were reconstructed into 3D models using the 3D Slicer 5.4.0 program, which was also used for intraocular and skull measurements. Results demonstrated that the anterio-posterior distance of the lens and postorbital breadth measurements were higher, while greatest length of the skull was lower, in brachycephalic than in non-brachycephalic cats (p<0.05). According to the results of Discriminant Function analysis, when considering head types, it was observed that 92.6% of animals with non-brachycephalic head and 79.2% of animals with brachycephalic head types were accurately classified. These findings emphasize the importance of considering anatomical variations in brachycephalic and non-brachycephalic cats for accurate diagnosis of eye health issues in these cats.