I love in the country and my dogs get into skunks sometimes. I found a receipe for washing them that takes the smell out. Here's the receipe that was passed to me:
Qt of hydrogen peroxide
TBS of baking soda
tsp of laundry detergent
water
Leave it on 5 - 10 minutes.
It's worked everytime for me.
Good luck.
I think I would also check with the vet about possible illness as I know there are several that alert us by the smell associated.