Yes, we hear this all too often. Right now, your wife's mommy chip is in overdrive causing her to be in the overprotective mode. Try having her read the Baby! Boom! chapter to let her know that 1) this behavior is completely normal (I yelled at my husband when our 3 month old burned her hand on his plate), and 2) that this will become a big issue in your marriage and your parenting if the mommy chip is not kept in check.
Let's not forget that when it comes to tough communication, it's all in the "delivery." Instead of criticizing her, offer her understanding that all moms are hardwired to act this way, and that most dads take a little while longer to hone the parenting skills. Explain to her that you will do your best to keep your daughter safe and happy, but that she will have to let go of the reins from time to time so you can be the father you want to be. If you both want a 50-50 co-parenting deal, neither one of you should push that CEO/VP arrangement.
Our best solution of all is the Training Weekend which is in the same chapter.