In late 2025, Germany faced a major outbreak of highly pathogenic influenza virus subtype H5N1 clade 2.3.4.4b, causing high mortality in migratory and resident wild birds and poultry. We examined 16 deceased birds, including Eurasian cranes, geese, a teal, and raptors found in western Germany between October and December 2025. Here, we provide a comparative analysis of light microscopic findings using histology and viral antigen distribution determined by immunohistochemistry, alongside the underlying viral phylogeny. Lesions and viral antigen distribution varied by species, with cranes showing infection in a broad organ spectrum, including the central nervous system (CNS), pancreas, spleen, liver, and kidneys, whereas other species exhibited a more targeted organ involvement. Phylogenetic analysis identified the EA-2024-DI.2.1 sublineage, with cranes forming a monophyletic cluster, which was consistent with the shared roosting/migratory behavior of cranes, although epidemiologic links were not formally demonstrated. In summary, our findings indicate species-specific lesion patterns and viral tissue tropism, which may influence transmission dynamics and environmental shedding.