Inflammatory cap polyps (ICP) are an extremely rare finding during digestive endoscopy, typically presenting as multiple polyps in the form of cap polyposis. Among the few reported cases of ICP, some have been associated with multiple polyposis forms, showing a clinical presentation similar to inflammatory bowel disease (IBD), which was subsequently ruled out following further diagnostic evaluation. In this report, we present an exceptionally rare case of two isolated ICPs (not in the form of cap polyposis) in a patient with a long-standing, well-established histological diagnosis of IBD located in atypical sites (specifically, the descending and transverse colon), with a characteristic endoscopic appearance. ICP can, therefore, manifest in patients with IBD and not merely be responsible for clinical presentations that require differential diagnosis from it.