I'd tell her, "Sorry about your luck!" and keep the eggs out of the fridge and eat them yourself. If she cannot be educated about the whole where eggs come from thingy, then she doesn't get to eat the goodness of your labors.
Once you start disinfecting eggs, you've ruined the whole purpose of having "fresh" eggs in the first place and you might as well just cut to the chase, save yourself the work and expense, and just buy them from the store...where they have big recalls on eggs tainted with salmonella. The salmonella that is tainting these recalled eggs is on the
inside of the egg, not on the shell. Unless she is counting on your having horribly unhealthy chickens and then eating the actual shells, she shouldn't be in any danger of getting the dreaded salmonella.
You're married to her...don't take the easy way out, man! Take the time to educate the woman!
Here, let her watch exactly from whence her "safe" store bought eggs come: