America had the better subs for certain things. Though if given a choice between going on a U-Boat or going on a fleet boat in war conditions... I think I would have to pick a fleet boat. Going on a U-Boat would be tantamount to suicide. Not that it wasn't dangerous for the Americans... but god... their losses can't compare to 3 out of 4 submariners dying.
Also one advantage a IXD has over a Balao that Hitman missed is underwater endurance. IXD2's can stay under longer than a Balao can. At least if SH4 and the U-Boat mission expansion are anything to go on...