When you use a receive location to receive files from a Microsoft SharePoint library, files within the Archive folder are collected.
This problem occurs when the Archive folder is configured under the same SharePoint library as non-archived files. In Event Viewer, you see a "You cannot copy "file_name" to itself" error message. This error occurs because that file was checked out by the receive location, and you cannot write over the file until the file is checked back in.
Cumulative update information
For BizTalk Server 2013 R2
The fix that resolves this problem is included in Cumulative Update 3 for BizTalk Server 2013 R2.
Microsoft has confirmed that this is a problem in the Microsoft products that are listed in the "Applies to" section.