PandaDoc documents are stored separately from templates. It's not possible to create one folder with both templates and documents.
Specify a folder when creating a new document
When you're creating a new document from PandaDoc template or via PDF upload, you can specify a folder where to store the document once created. Add the UUID of the folder in the body of the request in the following format:
You can find an example in the request Create Document from PandaDoc Template.
List documents in a folder
Get the list of documents located in a specific folder with "List documents" request. Add a folder UUID as a filter in the request.