Just in case anyone is still trying to find a solution to this, I'm posting this because boricua21's solution didn't work for me. Or at least I didn't understand it, so if this is a repeat of the same info, I apologize.
I was trying to set up a testing site so I could develop on the server in a sub folder, as well as have the site live...
I kept getting the same type of error:
Temporary files created in /home/public_html/Hotel/wp-content/wpclone-temp will be deleted."
This is what I did to fix it:
1. Create a backup in the existing (Live) site.
2. Download the created .zip file to computer (I did this through FTP because I got Internal Service Errors when trying to go directly to the URL). This can be found in http://www.sitename.com/wp-content/uploads/wp-clone.
3. Now take .zip file and upload it to the "testing" site or subfolder site in the same location. (www.sitename.com/subfolder/wp-content/uploads/wp-clone)
4. Go to testing site and select "Restore from URL" under WP-Clone options. Input the ORIGINAL URL from the live site.
For whatever reason, this is the only thing that worked for me. I tried a lot of different solutions - hopefully this will help some people if for some reason other solutions don't work.