Among the 10 native cats of Iran, the Felis chaus is considered as one of the largely unknown species. Despite the reports on jungle cats in southeast Iran, there is no comprehensive information about their parasitic diseases. Scanning electron microscope (SEM) provides a valuable tool for the study of these organisms. In October 2022, a 15‐year‐old male jungle cat (F. chaus) was examined for gastrointestinal parasites using SEM which revealed exact parasite structures such as the mouth, shape of the lips, teeth and their position, papillae, excretory pore, and amphids. SEM of the Taenia taeniaeformis found in the F. chaus intestinal epithelium revealed that this tapeworm consisted of four unarmed suckers and a large armed rostellum. The rostellum was observed bearing double rings of alternating and circular hook arrangements. There were 21 large hooks in the anterior ring and 21 slightly smaller hooks in the posterior one. This study is the first report of Joyeuxiella echinorhyncoides from a jungle cat (F. chaus) in southeastern Iran. The rostellum was cylindrical and armed with thorn shape hooks that covered the whole rostellum with similar density. It was armed with 20–30 long hooks arranged in 16 rows. Four big suckers were visible at the base of the rostellum, two on each side. The suckers were round, and unlike the rostellum, these structures were unarmed. The results of the present study observed under SEM, indicated that organs such as sucker and rostellum in cestodes and mouth and the shape of lips and teeth in nematodes played a significant role in the biology of these helminths. The SEM reveals the surface structures and their relationships which results in better distinguishing the species and showing their detailed differences. More SEM studies need to be conducted on other species of cestodes and nematodes, along with pathological tests, to obtain more comprehensive and precise information about how these parasites harm this jungle cat host. The results of present study indicate that morphological details are important which should be considered in the classification. Meanwhile, external structures described herein using SEM, further investigation using transmission electron microscope provide more data on the biology of the parasites. Research Highlights: Light microscopy is the first step to identify the parasites.High magnification 3D images of the SEM reveal the surface structures of parasites and their relationships precisely.SEM study of the parasites results in distinguishing the species and showing their detailed differences. [ABSTRACT FROM AUTHOR]