I like that, it would be similar to Lain... but, I always thought about another possible interpretation: what we call "the real world" is actually pretty similar (if not equal) to a machine. If the Matrix is a simulation of the real world, then why Neo wouldn't be able to hack the rules outside of the Matrix as he did inside of it? Maybe the glitches or errors of the Matrix are actually physically possible (obviously not in classical mechanics).

If that's the case, then, the Matrix is a good thing since it would let us understand in more depth the reality.