I've never done salmon on my #2 either but will be doing some fresh lake michigan salmon fillets tomorrow, I had the same concerns. After your done clean out the used foil from the bottom and from the smoker box wash the racks and the bottom of the smoker and then do a dry run.....no food 4-8 ounces of wood crank it up to 250 for a couple hours and that should take care of any odors, I'm sure others that have done salmon will have other efffective ways also...hope this helps...good luck on the salmon and post some pictures !!!