Hey

For the immune response damage pertaining B. pertussis, there was some literature of it being an intracellular pathogen within the macrophages as it hid from antibodies, I think there was some literature discussing on how macrophages were activated to secrete proteases and superoxides causing oxidative damage to the surrounding epithelial tissue in the lungs (http://iai.asm.org/content/68/5/2819.short) , or how the leukocytosis caused pulmonary hypertension which disrupted gas exchange (http://cid.oxfordjournals.org/content/47/3/328.short)

Again I don't know if we should lump the pathogens into a similar category for this, as the damage usually comes from these methods