Pasteurella multocida is a common constituent of upper respiratory tract microbiota but is frequently isolated of alpaca lung tissues from pulmonary infections. Despite its importance, very little is known about this bacteria at molecular level. In order to characterize P. multocida isolates, 24 isolates recovered from 46 mortal acute cases in young alpacas with suspected pneumonia were analyzed, using biochemical and molecular tests for capsule and LPS typing, virulence factors detection, and ERIC-PCR genetic diversity analysis. All the P. multocida isolates belonged to the capsular type A, LPS genotype L6 (related to serotypes 10, 11, 12, and 15), and possessed virulence factors gene toxA and tbpA. ERIC-PCR analysis revealed two electrophoretic profiles, and the majority of isolates (23/24) shared the same fingerprint, indicating strong evidence that there was a common source of infection for all the affect animals. This study revealed the detection of P. multocida type A, LPS genotype L6, and toxA+ and tbpA+ from dead young alpacas with pneumonia in Peru.