Alright, personally after reading a bit of this thread and a long walk out of rage, I've come to the conclusion that unless Mane6 really wants to send in some counter claims or battle this out in court (which is something I totally would do if I were in their situation. I personally have sent in many DMCA counter claims in the past and while they aren't the same thing this game easily passes off as parody) petitions and what not are the best way to go.
That being said, I think that starting more fan projects is the way to go from here. I hate to say it, but this entire act isn't them trying to keep their trademark, because they can despite fanworks: they're just being bullies like pretty much most big companies are. Assuming the Brony community is as big as you all like to say it is, eventually they'll get the message that you can't beat this.