When trying to organize large production files, it is a good idea to use namespaces. They are easy to set up and can be used without referencing. If you want to add a namespace to some or all the nodes in Maya you will need to create the name space and then rename the objects to use it.
namespace -add "one"; //will add the namespace to the scene
So for example I have an object called "sphere" in my scene:
rename "sphere" "one:sphere"; //will rename the sphere
This will do the trick to add the sphere in that namespace. If you want to change it , you can once again use the rename command to rename it to another namespace.To keep things organize it’s also very useful to be able to list the available namespace in a current scene. For this you can use :
...and off course with the magic of FBX these namespace will get carried to other apps, like Motion Builder, Mudbox.