Hi,
I'd like to comment one little difference that might be overlooked here on the flaps.
If you form flaps by means of a kneadable geometry the result is not the same as a "real" mechanical flap. In case of a normal flap there's an open space to re-energise the boundary layer on the suction side with air coming from the pressure side. (In fact normal flaps can be considered a variable geometry as well).
BTW:
Your question made me think about another question... ...what's more effective for the airfoil's glide ratio, a bit of camber increase or an increment in the angle of attack? I never checked that... If angle of attack is the answer, cambering your wing is an expensive solution to vary the aerodynamic properties. It all depends on your design angle of attack and your take off and landing boundary conditions I think.
BTW2:
I think that the speed range that you need will give you the answer whether it's worthwhile to build a kneadable geometry. The F-14 and the swift (I mean the bird,not any airplane type) are extreme cases, but for normal applications it's not necessary to overcomplicate life a s the swift does.
BTW3: (lots of BTW's BTW)
Fly by wire has only been invented because of the extreme dirigibility that seemed necesssary in fighter aircraft. For commercial aircraft, at least as far as I know, it's not necessary at all to fly stable.