Indications for a rhinoscopy (examination of the nasal cavities) include nasal discharge, nasal breathing noises, nosebleeds, sneezing, and reverse sneezing. This examination often successfully identifies chronic inflammations, foreign bodies, tumors, or fungal infections in the nasal cavity system. As mentioned before, rhinoscopy should be regarded only as an auxiliary diagnostic tool and must be interpreted in the context of other imaging procedures such as CT, X-ray, and laboratory diagnostics. During rhinoscopy, flexible and rigid optical systems are used to directly evaluate the nasal mucosa. As with tracheobronchoscopy, collecting mucosal samples is of great importance for interpreting the rhinoscopy.

Gastroduodenoscopy or colonoscopy are examinations of the gastrointestinal tract. They are performed using long, flexible video endoscopes. The animals often need to be fasted for an extended period before the examination. For a gastroduodenoscopy (examination of the stomach and small intestine), animals should not be fed for at least 12 hours. For a colonoscopy (examination of the colon), they should not be fed for 24 to 36 hours. If necessary, it may be required to prepare the patient a day before the colonoscopy for proper preparation. These gastrointestinal endoscopies are performed when there is suspicion of foreign bodies, as well as chronic vomiting, diarrhea, weight loss, recurring abdominal pain, prolonged loss of appetite, and other complaints. These examinations often help determine whether the patient has diet-related issues, chronic or possibly immune-mediated inflammations of the digestive system, ulcers, or even tumors. Treatments for these diagnoses vary greatly. During gastrointestinal endoscopies, it is essential to take numerous tissue samples. Simply observing the organs is often not sufficient for an accurate diagnosis.

The urinary system can also be evaluated endoscopically through a cystoscopy (bladder endoscopy). A significant advantage of this method is the ability to take tissue samples under visual control. This often allows for the identification of specific forms of inflammation, tumors, hard-to-detect stone diseases, or malformations. Following the procedure or during a separate appointment, malformations such as ectopic ureters can be surgically corrected in the soft tissue surgery department.