The funny thing is that I don't have any problems if I'm going to copy
those files via pscp from my windows machine where winscp is running
and showing me that problem.
It may be caused by the fact the WinSCP must open shell on remote server while command-line clients does not. It probably changes processing of commands.
I would suggest you to try to specify /bin/bash shell on SCP tab of login dialog or use SFTP instead of SCP.