I just read in Arthur Morris "Art of bird photography II" that 1/2 of the people in his groups using the 100-400 have had problems, so I'm not surprised.
The "00" means that it can't get the aperture data off of the lens CPU. Some will say that it's a "dirty contact" problem but the contacts are highly reliable. It's usually further in the communication chain - loose ribbon, bad CPU, intermittent CPU, that sort of thing.
I'd send it in again. Keep the paperwork. Every once in a while there have been repeat repair issues. The 100-400 durability, at least electronics wise, has not been too good, imo.