To determine the pathogenic causes of respiratory distress, depression, diarrhea and anus paste, and even death in young rabbits of a large scale rabbit farm in Xinjiang, pathological examinations were conducted on the lungs, livers, and intestinal contents of deceased rabbits collected from the farm. The pathogens were isolated, cultured, observed morphologically, biochemically identified, and confirmed via PCR. In addition, virulence genes and resistance genes were tested, along with pathogenicity trials in mice and drug sensitivity testing to analyze pathogen virulence and drug resistance, aiming to provide a scientifically sound treatment plan for the affected rabbit farm. The results showed that a Gramnegative short bacillus strain was isolated from the morbid rabbit, which was positive for maltose, citrate and cotton candy, and negative for hydrogen sulphide and peptone water (indigo substrate test). PCR identification and sequencing confirmed the isolate as Klebsiella pneumoniae, which carried a total of seven resistance gens: sul1, blaTEM, blaSHV, TEM, aac(6')-Ib, aph(3')-Ia and tet(A), as well as four virulence genes: ompc, ompA, papc and fimH. The strain was found to be sensitive to ceftazidime and butamocarbamate, but resistant to gentamicin and tetracycline. Pathogenicity test in mice revealed that the livers and lungs of the deceased mice were enlarged and exhibited minimal haemorrhages, while the small intestines showed hemorrhagic swelling, indicating that the isolate strain has a certain level of pathogenicity in mice. In conclusion, the pathogen responsible for the morbidity and mortality of juvenile rabbits in this farm is Klebsiella pneumoniae. This study provides valuable references for the prevention and control of rabbit Klebsiella pneumoniae in rabbits.