How to Deodorize Your Dishwasher and Other Tips. If your dishwasher is looking or smelling funky, first clean the filer according to the manufacturer’s directions. Then, use white distilled vinegar to deodorize the inside and dissolve water spots. Pour 2 cups white vinegar into a bowl and sit it upright in the bottom rack. Run the machine through a short wash cycle and it will be clean, deodorized, and ready to run!