Sanderxpander
In X3, using ARA, you don't have to "transfer" a clip at all, this is confusing advice. Pressing CTRL+M on a selected clip or choosing Melodyne from the Region FX in the contextual menu automatically transfers the selected portion of audio to Melodyne and Melodyne will analyze it even before it opens its window for your edits.
Well that's cool..... so no matter how you get the audio in..... follow the rest of the info as that should be the same. You have to play detective to get to the root of the problem.