For starters, pictures would be helpful to determine if the issue is related to fit. But chances are it's simply the leather that Meermin uses...which isn't known to be very great. But then again it's a $200 shoe.
Lovely! Will you be taking measurements from a pair of your wife's best fitting trousers? That is probably the approach I plan to take myself along with whatever personal adjustments my wife would like.
I'd like to think most if not all trouser fabrics are gender neutral. With that being said, I've thought about having a couple pair made up for my wife. You can't go wrong with twill cotton or worsted wool. The difficult part though will be getting proper fit I imagine.