If there are multiple .r3d files in a single folder, then those are spanned files and will appear as one clip. But I don’t think that is what you are referring to. I am assuming you are seeing a similar structure to the folder hierarchy as seen here:

When using RED AMA Plug-in for (folder), clicking on the .RDM master folder will add all clips contained within that folder in the bin (or make a new bin). You may need to re-install the RED AAM plug-in to see if that jiggers something. I’ll be willing to do a screen share with you to see your steps, but that would have to be later tonight as I am out all day.
Michael