It is entirely possible, and indeed very probable, that an experienced knitter will create a sweater that exceeds the quality of anything mass-produced in terms of style, fit, comfort, and suitability.
It sounds as if your wife may be a beginning knitter, but she can't become an experienced knitter without starting somewhere. While I do not knit, I know many people who do (including my daughter), and I have seen some beautiful things produced by people who have just learned to knit.
I would take the fact that she wants to create something for you as a compliment and a sign of love. If the sweater doesn't turn out well, she'll probably judge it far more harshly than anyone else, if she's anything like any other crafter I've ever known. I seriously doubt that you'll find yourself being expected to wear some poorly made thing that you'd find uncomfortable.