(1) Background: Cone beam computed tomography (CBCT) is increasingly used in equine practice to diagnose musculoskeletal injuries, including fractures in the distal limb. However, limited detail in the thick cortical bone of the metacarpus/metatarsus hinders accurate diagnosis. In human medicine, the addition of aluminum filters (AF) enhanced image quality while reducing radiation exposure. This study aimed to evaluate the effect of AF on image quality in CBCT scans of equine distal limbs. (2) Methods: Adult equine cadaver limbs were scanned with a mobile CBCT unit using varying tube currents (10–100 mA) and AF (13–25 mm). Two independent experts assessed the image quality using a four-point visual grading scale, focusing on cortical bone detail and artifacts. (3) Results: Higher tube currents generally improved image quality, but no filter was beneficial for the metacarpal/metatarsal regions. For the proximal phalanx, thicker AF (19–25 mm) improved image quality without significantly increasing the required tube current. (4) Conclusions: The optimal balance between image quality and radiation exposure using the O-arm® CBCT system for equine distal limbs was a tube current of 50 or 64 mA without filtration for the metacarpus/metatarsus, while a tube current of 50 mA with a 19–25 mm AF provided the best image quality for the proximal phalanx.
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