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Experience tells me you want that motor mount to be strong and secure. The torque that a trolling motor puts out is surprising when you're docking, for instance, and quickly go from full forward to full reverse.
Wouldn't using glue leave a scar on the hull if you remove the plywood later? Here's a pic of the Minn Kota mount I made for my 55# motor that I'm using now. Four stainless bolts and wing nuts. Used solid oak and Minwax Helmsman spar urathane to seal. The other great bright work on the stern is cosmetic, from the previous owner. I just worked around it.
A 40# motor is a great choice for this boat.
Are you planning on motoring quite a bit, or just to get in and out of your launch area?
I've experimented with all sorts of setups on sailboats this size... 28 to 80 lbs thrust, 12 and 24 volts, 1 and 2 batteries, Minn Kota and MotorGuide... circuit breakers, various wire types, varying mounting positions and methods, etc. etc.