Hans;
The cannopy will make the same drag no matter where it is.
What Wells says about canopy drag, seems to make sense to me.
Ever ride in a convertable car or the back of a pick-up truck? Once the air is penetraded, it takes a certain amount of time for the air to reform after the vehicle has pasted through it. There is a area of vacuum formed from the rapid seperation of the air.
Another good example would be the "Drafting" that is done in high speed automobile racing, particularly NASCAR. The trailing car is out of the air stream by being shielded by the leading car. The trailing car is also "Pulled" along by the vacuum created by the leading car.
This is more readily visible by watching the wake of a boat in the water moving rapidly. Except air wake would have a top, bottom and two sides, while water wake only has the bottom and two sides. Essentially, the bottom half of the air wake. The valley of the water wake representing the vacuum area create by an air wake.
By placing the canopy at just the right position on the fuselage, it will could be placed in the seperated portion of air wake. This position would be located at a position after the air has been seperated by the nose of the A/C and before it reforms near the epinage.
The canopy would have reduced drag, because it is out of the highest air flow and in the vacuum created by the parting air. This reduced drag effect would be effective for a specific speed range.
I also would assume, that a bubble canopy might actually create more drag than a non-bubble canopy. This drag due to the vacuum created on the canopies rear facing surfaces. Non-bubble canopies would suffer less from this vacuum effect drag, because they don't have those rear facing surfaces.
I have no clue how propeller thrust air might effect any of this, but I am sure that it does.
I am by no means an expert, but it seems reasonable to me. Flame me if you like. I really am curious now and I would like to know.

Mino