Once you've decide the story-line of you animated production, there are two basic areas that Character Animator to focuses on... First.. Create your Puppets and second.. do the Scenes.
When you open up Character Animator, the interface is a mishmash of both processes, Creating the Puppet and doing the Scene. This can be confusing, especially if you're not an animator.
My suggestion is to make the two process as distinct and clearly defined steps in Character Animator.
Here is a link to my Character Animator Thread that will explain more about my suggestion.
If you have any comments, or would like me to clarify any points... please leave a message!