Okay, in that case you've probably achieved what you set out to achieve, it's just not my cuppa tea, which is fine.
I will say that although confusing the players and having mysteries with no prescribed answer seems to be a standard part of Mothership design, I would recommend against confusing the Warden. Stuff like that can leave one wondering whether the designer had something in mind that they just forgot to mention and you're not seeing it, or whether it's an intentional open question. You could have a little panel about that somewhere. E.g. "WHAT'S UP WITH THE SQUIRRELS? Are they real, or part of the game? Are they just regular city squirrels that seem more significant because of the game's themes, or are they masterminding the whole thing in some way? Take cues from the players and let their guesses guide you, fleshing out the story as you go."