The difference is that there is no credible evidence that vaccines in general cause harm other than some unfortunate but rare reactions. (I qualify this because a specific formulation could contain something generally harmful, like the GMO debate it is in fact possible to create a harmful GMO so saying that GMOs are safe in not accurate.)
There is very good and credible evidence that jet exhaust is harmful, fill a room with it and all the occupants will die. High levels of exposure to the compounds in jet exhaust undoubtedly increase the risk of cancer, the science is clear. Whether the levels that pilots and airline workers are exposed to can cause the sort of harm indicated is way above my pay grade.