Imported Files going in the wrong folder

Elements Organizer 10 started misplacing all the Imported Files in the folder above at some point.
In Folder Location view (under Display) I right click folder B and chose Import to Elements Organizer. Once the Import is finished, all photos but one are under folder A instead... needless to say my catalog now looks very messy because photos show in folders with different names. In Finder they appear in the right place, and even the File Properties in Elements show the correct location. Just not the Folders.
I have about 20k files imported in my catalogue, this started happening recently and affects only files imported in certain external drives or partitions.
I tried the repairs, optimizations, reconnects etc. for the catalogue, looked for updates and restarted the software many times now.
How can I fix this?

Hi guys,
Sorry about slow time to reply.
I'll try to be a bit more specific.
The problem seems to happen only with a new firewire drive, Lacie Rugged 1gb.
I have Mac OS X v10.6.8, processor 2.26Ghz, intel core duo, 8Gb 1067 DDR3; Elements Organizer 10.0
The problem happens regardless of how I import the files, ie in thumbnail or folder view, and my procedures have not changed since using previous drives (right click folder and chose Import to Elements Organizer). If I am in thumbnail view or folder batch view the files are there, however having to browse among Ks of files is not my preference, I like folder view better.
I think the image below explains it better: the folder selected is called Group Tax team day (bottom left). The photo at the top is actually from this folder, but the one at the bottom (and all the others then) are from a folder called HK Dez 2012, which is the last that was imported directly below. You can actually see that the path at the top of the image does not match the selected folder on the lower left. And btw, this means that the files at the top folder in the drive cannot be found in folder view, since they have no folder to move to.
Appreciate any help on this!

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