Looks like they dropped a bucket of splooge in there and then just dropped the TAFG on top of it. I really do not see any particular problem with doing it that way. The TAFG is really holding the rig and drive train and the hull is just to keep the water out.
Did you find any internal delamination there at the aft end of the keel from the rock strike? I do not see anything like that in this picture and I assume that is why they sawed the TAFG away. Did they look at it from the outside first? Seems like a draconian effort to go inside if you could do something from the outside. Is the plan to reglass the removed portion of the TAFG here when you put it back together?
The TAFG is an incredibly strong way to build a boat, but it is a bitch for getting to the true bilge, running plumbing and electrical, etc. And your accident shows a real downside of the problems it presents in repair. Bring us up to date.