If you want specific folders to be backed up on all your clients, on the NBU Server, just add the path/folder(s) (i.e., d:\home).
1) Backup Policy Management
2) Create a new class or use an existing class
3) Select the class, click on Files
4) Click on Edit, New to add a new pathname
You shouldn't need to do an include on a client unless you have an exclude on the Server that excludes a parent folder or other similiar situation.