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If this is the correct understanding, I would export the \lx field only once, to the lexeme field of FLEx in the Wancho writing system. Then you can bulk-copy each lexeme form into the other writing system, so that it contains the same information. You would then want to replace the writing system formatting to the new (IPA) system, using the following bulk-replace dialogue (click on more to see the format button):

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Apologies, Eline. I see that you wrote that you did try to import with no converter but got a lot of error messages. I missed that part of your message when I replied earlier.
I have no more advice for you, but I’m sure there are others who have relevant knowledge that I’m lacking and will be happy to share it for your benefit. (And I’ll learn something as well.)
Kevin
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