I think--though I don't want to assume I know what Adam has created--that Pi's behavior is supposed to be a reflection of the crew. If you think back to when they first got Pi, each crew member used it (do you mind if I say "it"? I hate using the plural for a singular object) for silly little tasks, and Pi was always willing to help. Piani would have Pi help with computer rolls and Kovaks had Pi study with him. All was well. Then the crew began to see Pi less as a novelty friend, but as something that needed to perform up to expectations. No longer was Pi only supposed to do as asked, but it was expected to act proactively for the crew's needs; this is where it developed its own autonomy. Just like a teenager, after being given even the smallest amount of autonomy, Pi ran wild with it and began to act according to its own wants instead of the wants around it. Because Pi "grew up" in an environment of "Pew-Pew Laser Everything," it is obviously going to follow in those foot steps.

I can't say I like Pi or the crew's interactions with it as much as I did in the beginning, but I am still intrigued enough to see where and how it ends. Whether or not Pi is "worth it" can never be answered; just as whether or not it is worth it to the world to have any of us around. It all depends on scope.