Have you found the issue? If not, I would leave things as they are so that we can troubleshoot better.
Why would the pool flood? The feature pump draws from the pool and returns to the pool so it is net zero. Or are you expecting rain? But even that really doesn't matter.
A couple of follow up questions:
When the pump is trying to prime, do you see any water coming in the inlet in the pump basket?
When the pump is trying to prime, is the cartridge filter pressure changing at all or is it flat line at the minimum PSI?