I don't think there's a wood.
The folder naming option is not designed to handle partial copies of the existing hard drive folder paths.
It works best if you use a library field based naming scheme. A typical example is [Artist]\[Album]. With the custom option you can define your own rule. You can also combine text strings and library fields, for example: sherb's music\[Genre]\[Album Artist (auto)] - [Album]. If you don't close the disc you can add another session that uses a different rule.
The "Same as original" option works exactly as the name implies. It checks and replicates the complete original folder structure. It doesn't matter how you add the files to the burn queue.
Hopefully JRiver can develop this option further, but I think it works as designed now.
EDIT
However, I don't quite understand this:
Supposing I have this structure:
MyDocuments/Folder1/Folder2/Files and sub folders
I want the contents of Folder2 on a CD
The nearest I got was to open Folder2 in MC and drag the files from the right pane to the burner, then drag each individual sub folder from the tree to the burner. What I get on the CD is:
Folder2/Files and sub folders when what I want is just Files and sub folders.
You should get "MyDocuments/Folder1/Folder2/..." instead of just "Folder2\...".