What difference does it make whether women choose career X because of the bed time stories their mothers told them or because their brains are genetically different?
Because, in this case, it seems like social pressures may be pushing a group out of lucrative, high-benefit career paths. We, as a society, may consequently be excluding a large number of highly talented people from those jobs and making [CS or other male-dominated field] less productive. Remember how blacks were excluded from professional football because they lacked strategic thinking skills? Does anyone think football was better back in the segregation days?
More importantly, "the establishment" has a long history of justifying their position with generally unsupported claims that [group] is just not naturally suited or inclined to [leadership position]. The aristocracy knew that their magical blood entitled them to rule. The Europeans knew that Africans were unsuited to proper education. Men know that women are unsuited to rigorous logic. Historically, these claims have frequently been found untrue, and it's appropriate to be skeptical with the party in power claims that an identifiably different group "just doesn't want" some path to success or power.
Now, certainly there are differences between the sexes. I don't think anyone is questioning that. What I think we need to do is figure out to what extent extraordinarily subtle social pressures (the very forces that men claim to be insensitive to) might be skewing the data. Maybe girls play with dolls and boys play with trains because of built-in genetic programming. I only know that, when my friends' daughters go for the dolls, my friends coo just a little louder and say things like 'We didn't encourage that at all - she just naturally prefers the dolls." When their sons go for the dolls, they don't make any special noises of approval and say things like, "You know, he's got an uncle who's gay, and we're totally cool with that."