Do you have a backup for the presentation? You should always backup Unity projects before importing any kind of update! Just copy the whole project directory. I know this advice doesn't help now if you didn't do it, but in the future always backup, or better yet, use version control! Personally I can't imagine developing anything without version control, especially for a client. Without version control you're always one misstep away from disaster... you just don't need that kind of stress!
But moving on...
PlayMakerMouse should get added automatically if you use any mouse events in your FSM. You should never see it in the inspector though... This is a new feature so there could be bugs with it. We beta test every update, but some bugs will slip through - again, backup or use version control!
It's hard to diagnose the other problems without seeing your setup. Can you send me your project? I'll take a look at it ASAP...