In the past I have used Bare Metal foil quite a lot with very few problems and I found it easier to apply than tape, however I have recently had similar problems to you. I recently built a Kawasaki Ki61 to enter in the IPMS model expo in Melbourne (Melbourne Australia, not Florida).
The canopy was one of the last parts I painted just days before entries were due and, like you, I experienced a lot of residual adhesive after removing the foil from the clear parts (to which I had given a base coat of 'Super Stride' vinyl floor polish). I have previously found a product called 'De-Solv-It' to work quite well (I don't know if it would be available in the U.S.). It is non toxic and apparently has a citrus base. I find one of those small sponge applicators used for applying mascara works well to apply it. I then quickly wash it off to avoid it affecting the paint work.
Unfortunately, this time I had used Alcad for the external airframe colour and De-Solv-It did just that in a number of places and very quickly.
So, I'm afraid I am not much help and would also love to find a foolproof method for masking canopies when things like precut masks are not available.
Incidentally, I wonder if the age of the Bare Metal foil has any bearing on the amount of residue left behind? I have only experienced major problems recently after not having made a model for a few years and using foil that would have to be at least 5, possibly 10 years old.