Whilst not being an entirely 'natural' solution, I find the best way to cleanse the air after using the toilet is to light a match, this burns away the methane, making it more pleasant for the next person!
Quince fruits, which are ripening on bushes near you right now, impart a wonderful scent to clothes and airing cupboards, in the car or just around the home. They never really rot either - I'm still finding them at the bottom of my wardrobe with no ill effects. Natural sweet scent, and even better, free!