Hi,
I will be adding more options which you described in updates.
At the moment you wrote everything right I believe.
Quote:
Ideally I could reupload multiple files to 1 post and grab the links from that 1 post.
You can do that by putting all files in one folder and selecting that folder to process. If you don't need to compress them they will be uploaded as single files in one post with download link for each file.
Edit:
1.40:
* Added option in "Settings" -> "Process" -> "General" -> "Don't check for duplicates".
* Added ability to set template type for sections.