Well, the beginning of the movie solidly confirms that big starships can soft-land on Class M planets, exactly where they want. So setting a certain city block as the destination would be perfectly valid as such...
Khan could be relying on the "soft-landing" part falling apart by the time the ship gets to SF HQ doorstep, or he could issue further orders when the camera follows the perils of our heroes. But really, what we do see is
a soft landing by any standards, for something that massive falling all the way from the Moon. It's just not a very accurate soft landing.