I had a bad smell coming from my air system too. When I changed the fresh air filter (under the hood) I noticed mud at the bottom of the air filter compartment. OH! This can't be right! Using a long screwdriver and a narrow paint scraper, I found about 1-inch of mud and gunk in the bottom. Further cleaning, I discovered there is a drain with a rubber outlet that had gotten clogged. A thorough cleaning in front of and behind the filter solved the problem. A shot of Febreze helped too. You could probably hang an air freshener from the filter if you like.
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