I actually learned a very interesting piece of science regarding this bracha. At conception, all embryos are morphologically female. After 40 days (approximately six weeks), the Y chromosome in a male embryo kicks in, and the embryo becomes a male fetus. In an embryo that is supposed to be female, this change does not take place (obviously) and the embryo remains female.
Although I wonder if the Chachomim were aware of this (I bet they were), the bracha being said by the male may be a show of Hakoras hatov of Hashem’s Greatness, that the change which was meant to take place DID in fact take place, and as a result Hashem did not make a (destined) male child, remain female, that He allowed the natural order to take place. We know that there are people with gender assignment issues, and perhaps it is due to something that goes wrong in this process. So it truly is a bracha worth making with real kavanah every day.