Sealing wood with Resin
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Do not thin the resin with acetone! If you are thinning the VE then styrene would be the solvent, but any extra solvent just weakens the resin. Thinned resin will not waterproof plywood by itself. There are really no shortcuts when you are trying to protect wood reinforcements. I would suggest that you use multiple layers of CSM and maybe even a layer of 1708. You already have too much time and money invested to try and short cut the process. The best way to coat the wood would be epoxy, but VE is a good second as long as you do not use it as an adhesive which it is not designed for.
VE resin from what I have read and heard from others is that VE will bond to old VE just as epoxy will if not better. The reason I chose VE instead of epoxy is for that reason and that Formula uses VE and not epoxy of PE when the hull was originally built.
To bond old wood to new on the transom I plan to mi VE and CSM to make a peanut butter type consistency as Glass Dave mentioned in other thread, this is because I can not find core bond for VE resin, only PE. Plan to use a layer of 1708 and VE resin between the two 3/4 layers of the transom wood. Plan to use 3M 5200 to fill any gaps between bulk heads and gaps unable to fill fully after wood has been glassed/resined to seal against water. Once cured I'll use VE and lap joints to build up for structure strength.