I agree that trying to mitigate prompt injection in isolation is futile, as there are too many ways to tweak the injection to compromise the agent. Security is a layered thing though, if you compartmentalize your systems between trusted and untrusted domains and define communication protocols between them that fail when prompt injections are present, you drop the probability of compromise way down.
> define communication protocols between them that fail when prompt injections are present
There's the "draw the rest of the owl" of this problem.
Until we figure out a robust theoretical framework for identifying prompt injections (not anywhere close to that, to my knowledge - as OP pointed out, all models are getting jailbroken all the time), human-in-the-loop will remain the only defense.