One of the issues is that in order to improve its LO capability, the tail hook retracts into a compartment with a door (similar to how some landing gear works).
The door/compartment could only be made so big to fit with the other stuff and they thought it was long enough and it is long enough for some landing attitudes but not all. And we all know about Naval Aviator attitudes when it comes to landing (rimshot)
This was a system engineering bo-bo and one that will be difficult to fix. There is already talk about single use extending tail hooks. Expensive but might be the only way to make it work.