I dont think I'd want to leave styro that a rat/raccoon had gotten into below deck. IMO, Starcraft did a poor job of adding flotation to boats, as did (do?) most makers, esp on boats this old.
Losing any of what little styro they used is bad enough, but w out pulling the deck, theres no way to know how much has been chewed up and is now mostly beads of stryo not still in sheet form.
Beads of styro floating around loose below deck gets into the limber holes.
I've never seen critter nesting material that didnt also smell like it's also been used as a critter toilet.
Ruling out pulling the deck before its been leak tested is also early in the process.
I agree the deck appears to be in good shape, perhaps it could be removed and put back.
Maybe the transom is still good to go too. You'd be fortunate on both it and the deck.
Last thing to note is that it will never be easier to pull the transom and deck and confirm their actual condition, then now while you've got it torn apart. And absolutely it wont ever be easier to replace either if need be or at least seal up both sides of the plywood and all 4 edges.
I'd also have to weigh whether or not I'd be able to get the Admiral aboard for lengthy cruises if she knew critters had gotten onto the boat and I hadnt done everything possible to remove their presence.