I think you're worrying unnecessarily. We're talking about a 6.5m RIB here (aka Ark Royal) to those who have fished with SIBs and small RIBs.
At this size, the tube material is more than likely going to be hypalon. Even Strongan Duotex (Zodiac's PVC material) is robust enough to withstand a stray hook. A little common sense and care when you're fishing is all that's required. Hell - you're not landing swordfish!
Use a decent boat rod (8' in length) and have a plastic fish box on board. On a strike - then retrieve the fish as normal. When it's close to the surface, then swing it high over the tube and into the fish box. The rod can now be placed on the deck of the boat. With the fish and the hook (or hooks if you're using a mackerel line) safely in the box - you can remove it. Decide whether you're keeping the fish and despatch it with a priest quickly, job done.
One thing I've found is fishing tackle bags are a waste of time. Invariably they get soaked and slide about. A tackle box with multi-compartments is the way to go. Secure when underway.