How to treat JPEGs as separate files?

I understand that there is a toggle box for this, but does this work ONLY upon original import or can it be used after RAW files have been imported into the library?
My situation: I have existing RAWs that I occassionally want to convert in a third party RAW converter and then save as a jpeg -- the all the files still in LR's library for managing. When I do this into the same folder, LR recognizes that there is now a jpeg associated with the file (and it indicates this with a CR2+jpeg note on the thumbnail), however, I can't get LR to display the new jpeg.
What am I missing?
Thanks,
Frank

Nope. In this case, I'm just shooting and importing the RAWs. Then I'm using the "find in finder" to go to the RAW and open it in a third party RAW converter (in this case, DPP, but I might also do this type of thing with Bibble). Then I'm saving the file from that third party program as a jpeg into the same folder. I'd like LR to let me see the original RAW as well as the new version that was saved as a jpeg.
Now...that I think of it, I should probably be saving modified versions of the files in a separate "derivative" type folder. But, my suspect DAM management aside ;7) , I'm wonder why this won't work.
As background, I'm looking to possibly shift my DAM over to LR from iView/eMedia, so I'm testing how well LR (and I) can handle conversions that were done in other programs.

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