Have you double checked all fuses? The only reason I mention it is I had a friend that nearly sold a Honda Civic due to the O2 sensors reading "not ready status" and it was failing Texas emissions because of it. Turned out he had an old aftermarket radio that did not work and had blown the fuse at some point. It was not mentioned anywhere, but the radio fuse was the memory keep alive for the ECU. Essentially, every time he turned the key to off it was the same as disconnecting the battery.

Good luck, hope you figure it out!
Ryan