I asked this question exactly for this reason, to get more insight into this topic. However, this answer doesn't prove your point at all. "There are evidently a few things established in the movies that they'd rather we didn't mess with too much". That could very well mean that they had certain answers in mind, and didn't want anyone to mess with these areas and probably giving "wrong" answers. They also rejected a few of Rarebit's ideas, for this reason I suppose. "Established" can mean "ascertained", but also "introduced". It's obvious that they did leave Chadwick and the rest lots of freedom to do stuff with their characters and universe, but apparently not full freedom. Also, Rarebit doesn't talk to the Wachowskis all day. A few months ago, he didn't even know that they had anything to do with the game at all. He said he met Chadwick just a few times and wasn't asking him questions about the brothers - so this statement merely states that they haven't given him instructions to answer stuff.
However, another interpretation is that they really left out blanks to be filled by others. In this case, I'll of course loose my "admiration" of the movies' storyline and the Matrix at all. Already way back in the day, my Dad was wondering if they "weren't just messing with us" with all this confusing talk and mysteries. I didn't really know, but I was assuming that they certainly had something in mind. If this turns out not to be the case, I'll of course change my opinion.
yeah, but come on - you're really reaching with regards ways to explain away these issues with the final film at this point. how far do we want to go in wondering if the w bros actually came up with stuff to fill these blanks?
oh wait, the guy responsible for driving the story along in conjunction with some other guy isn't even aware of any of that stuff being addressed in the future. okay then, we'll imagine that maybe the w bros did write all these things down but they're sitting in a vault in wackowski towers somewhere, come to save us all in a matrix fans darkest hour.
if they "haven't given him instructions to answer stuff", don't you think that they would have actually done so by now considering these are pretty big "reveals" with regards to the numerous holes and issues already raised?
well, let me ask you - debating aside, which do you personally see as being more likely and credible given the above? that somewhere, somehow, the w bros do indeed have this stuff written down and sometime in the near future will remember to phone up rarebit and fill him in? or that they just made the film and thought, "okay, job done, this all makes perfect sense, cya" and never had any intention of fleshing out these problems and issues with the film, even if only because their internal creative process went horribly wrong somehow and they didn't actually ever see any problems with Revolutions when making it?
ZOMG! TEH DRAMA!