No.
do that all with the inside skin and tabbing
Grind away all the gelcoat for 8-12" in, and yes on the fishboxes if they are staying, and under them.
Then bond in the plywood layers. Then glass the inside with 12", 10",8" overlaps into the hull and fishbox and under. Some risk here as I assume the fishboxes have strength. If they are really wimpy; they gotta get removed or cut back and repaired
For the main repair.
I really like to go over the top with glass. Exposed plywood will blow open on you. The way I'd do it is to go over the top 12,10,8,6,4" or 2" minimum at the end...with each inside layer, same like the inside.
Then, you'll have a hump on the outside to fair in. Touche'.
There is really no reason to glass that now. Once the ply is there, remove all the gelcoat off the transom exterior, repair your clamping bolt holes for the transom work, consider glassing over it for leak protection, one layer of 1708 and epoxy. Then if you want to gc, you can put something else there.