In the present study, we evaluated the effects of various stocking densities on the tracheal barrier and plasma metabolic profiles of finishing broilers. We randomly assigned 1,440 Lingnan Yellow feathered broilers (age 22 d) to 5 different stocking density groups (8 m
−2
, 10 m
−2
, 12 m
−2
, 14 m
−2
, and 16 m
−2
). Each of these consisted of 3 replicates. The interleukin (
IL
)-1β and IL-10 concentrations were substantially higher in the 16 m
−2
treatment group than they were in the 8 m
−2
and 10 m
−2
treatment groups (
P
< 0.05). Nevertheless, IL-4 did not significantly differ among the 5 treatments (
P
> 0.05). The tracheal mucosae of the birds in the 16 m
−2
group (high stocking density,
HSD
) were considerably thicker than those for the birds in the 10 m
−2
group (control,
CSD
). Relative to CSD, the claudin1 expression level was lower, and the muc2 and caspase3 expression levels were higher for HSD. Compared with CSD, 10 metabolites were significantly upregulated (
P
< 0.05), and 7 were significantly downregulated (
P
< 0.05) in HSD. Most of these putative diagnostic biomarkers were implicated in matter biosynthesis and energy metabolism. A metabolic pathway analysis revealed that the most relevant and critical biomarkers were pentose and glucuronate interconversions and the pentose phosphate pathway. Activation of the aforementioned pathways may partially counteract the adverse effects of the stress induced by high stocking density. This work helped improve our understanding of the harmful effects of high stocking density on the tracheal barrier and identified 2 metabolic pathways that might be associated with high stocking density–induced metabolic disorders in broilers.