There's absolutely a logistical consideration when striking deep into enemy territory to take a capital. There's also the issue that, depending on how many civs you play against, said capital may not only be deep in enemy territory, but also surrounded by territory that isn't yours (but isn't the enemy's territory). The result can be that taking the capital simply gets you a good city but one that you can't develop effectively, due to your neighbors' culture bubbles keeping you penned in. So, despite the great positioning, you can't take advantage of it because of the neighboring culture.
I was playing on the Earth 18 Civs map recently and, as the British, took Paris. Major blow to Louis, and gave me some nice resources, but Izzie to the south is pressing her culture on me with Madrid, and Freidrich to the northeast has Berlin (and other cities) pushing the cultural boundaries back so that, even though a square is only 36% German, I still can't use it yet. The real pisser of all of this is that there's some really nice resources there, but I can't get access to 'em.
I was playing on the Earth 18 Civs map recently and, as the British, took Paris. Major blow to Louis, and gave me some nice resources, but Izzie to the south is pressing her culture on me with Madrid, and Freidrich to the northeast has Berlin (and other cities) pushing the cultural boundaries back so that, even though a square is only 36% German, I still can't use it yet. The real pisser of all of this is that there's some really nice resources there, but I can't get access to 'em.