Just a quick note from the old drag racing days. A two- speed Powerglide automatic "eats up" about 20 to 22 HP. A three-speed Turbohydramatic 400 (TH400) due to it's extra gear and durability has about twice the losses. One more problem is that the rear end differenial has losses too.
Now, manual transmissions (have less losses compared to automatics) with "sychros" have more losses than the older non-synchro Indy car tranies. The problem with a non-synchro trany, is that it will shift like a worn out school bus unless you are really experienced. Most transaxles are probably the best compromise due to the tranmission and differential being combined into a single unit.
You do not loose HP spinning a driveshaft, however, the moment of inertia will usually be higher which is bad for acceleration. Also as mentioned above, if you have a driveshaft, it usually means that a rear end (with it's losses) is also involved.
Jay