I doubt wood will corrode the aluminum as long as you don’t use treated pine, or other chemically altered wood. I’ve removed wood from transoms of a couple of old Crestliners and found no corrosion and no pad. I’m guessing here, but that pad may have been to seal the backside of the wood to keep water from creeping up and rotting the wood. Painting the backside of the wood with a water-resistant marine paint may help too.
Use aluminum screws, because two unlike metals and water can set up galvanic corrosion.
Dave