Can't upload files to ftp again

Using 3.0.0 Beta 4

Similar to issue that was resolved a couple of minor revisions ago.
I created a new site. Nothing was in the remote ftp folder. Click on upload site or publish and once it creates the folder, it will not upload files into the folder. I get an error 550 Directory already exists when it tries to upload the files that are supposed to be in that directory. See pic below. Only workaround is to upload every folder individually.


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