I have a similar issue. The window on the remote host (Linux) is mostly empty, with only small icons where should be directory icons and names (see screenshot). I can change to these directories, but everything stays empty apart from those icons. No filenames. Here's the Debug 1 log, maybe you find sth there:
. 2013-01-18 14:49:55.364 --------------------------------------------------------------------------
. 2013-01-18 14:49:55.364 WinSCP Version 5.1.0 (Build 2625) (OS 6.1.7601 Service Pack 1)
. 2013-01-18 14:49:55.364 Configuration: C:\apps\winscp\WinSCP.ini
. 2013-01-18 14:49:55.364 Working directory: C:\apps\winscp
. 2013-01-18 14:49:55.364 Command-line: "C:\apps\winscp\WinSCP.exe"
. 2013-01-18 14:49:55.364 Login time: Freitag, 18. Januar 2013 14:49:55
. 2013-01-18 14:49:55.364 --------------------------------------------------------------------------
...
. 2013-01-18 14:49:55.364 Tunnel: No
. 2013-01-18 14:49:55.364 Transfer Protocol: SFTP (SCP)
. 2013-01-18 14:49:55.364 Ping type: -, Ping interval: 30 sec; Timeout: 15 sec
. 2013-01-18 14:49:55.364 Proxy: none
. 2013-01-18 14:49:55.364 SSH protocol version: 2; Compression: No
. 2013-01-18 14:49:55.364 Bypass authentication: No
. 2013-01-18 14:49:55.364 Try agent: Yes; Agent forwarding: No; TIS/CryptoCard: No; KI: Yes; GSSAPI: No
. 2013-01-18 14:49:55.364 Ciphers: aes,blowfish,3des,WARN,arcfour,des; Ssh2DES: No
. 2013-01-18 14:49:55.364 SSH Bugs: A,A,A,A,A,A,A,A,A,A
. 2013-01-18 14:49:55.364 SFTP Bugs: A,A
. 2013-01-18 14:49:55.364 Return code variable: Autodetect; Lookup user groups: A
. 2013-01-18 14:49:55.364 Shell: default
. 2013-01-18 14:49:55.364 EOL: 0, UTF: 2
. 2013-01-18 14:49:55.364 Clear aliases: Yes, Unset nat.vars: Yes, Resolve symlinks: Yes
. 2013-01-18 14:49:55.364 LS: ls -la, Ign LS warn: Yes, Scp1 Comp: No
. 2013-01-18 14:49:55.364 Local directory: D:\Archiv, Remote directory: /home/bafink, Update: Yes, Cache: Yes
. 2013-01-18 14:49:55.364 Cache directory changes: Yes, Permanent: Yes
. 2013-01-18 14:49:55.364 DST mode: 1
. 2013-01-18 14:49:55.364 --------------------------------------------------------------------------
...
. 2013-01-18 14:49:55.505 Waiting for the server to continue with the initialisation
. 2013-01-18 14:49:55.505 Detected network event
. 2013-01-18 14:49:55.505 Server version: SSH-1.99-OpenSSH_3.7p1
. 2013-01-18 14:49:55.505 Using SSH protocol version 2
. 2013-01-18 14:49:55.505 We claim version: SSH-2.0-WinSCP_release_5.1
. 2013-01-18 14:49:55.505 Waiting for the server to continue with the initialisation
. 2013-01-18 14:49:55.505 Detected network event
. 2013-01-18 14:49:55.505 Doing Diffie-Hellman group exchange
. 2013-01-18 14:49:55.505 Waiting for the server to continue with the initialisation
. 2013-01-18 14:49:55.520 Detected network event
. 2013-01-18 14:49:55.520 Doing Diffie-Hellman key exchange with hash SHA-1
. 2013-01-18 14:49:55.614 Session upkeep
. 2013-01-18 14:49:55.770 Waiting for the server to continue with the initialisation
. 2013-01-18 14:49:56.144 Detected network event
. 2013-01-18 14:49:56.175 Session upkeep
. 2013-01-18 14:49:56.394 Verifying host key rsa2
...
. 2013-01-18 14:49:56.425 Host key matches cached key
. 2013-01-18 14:49:56.425 Host key fingerprint is:
...
. 2013-01-18 14:49:56.425 Initialised AES-256 SDCTR client->server encryption
. 2013-01-18 14:49:56.425 Initialised HMAC-SHA1 client->server MAC algorithm
. 2013-01-18 14:49:56.425 Initialised AES-256 SDCTR server->client encryption
. 2013-01-18 14:49:56.425 Initialised HMAC-SHA1 server->client MAC algorithm
. 2013-01-18 14:49:56.425 Waiting for the server to continue with the initialisation
. 2013-01-18 14:49:56.456 Detected network event
...
. 2013-01-18 14:49:56.487 Waiting for the server to continue with the initialisation
. 2013-01-18 14:49:56.519 Detected network event
. 2013-01-18 14:49:56.519 Offered public key
. 2013-01-18 14:49:56.519 Waiting for the server to continue with the initialisation
. 2013-01-18 14:49:56.519 Detected network event
. 2013-01-18 14:49:56.519 Offer of public key accepted
...
. 2013-01-18 14:49:56.612 Sent public key signature
. 2013-01-18 14:49:56.612 Waiting for the server to continue with the initialisation
. 2013-01-18 14:49:56.612 Detected network event
. 2013-01-18 14:49:56.612 Access granted
. 2013-01-18 14:49:56.612 Waiting for the server to continue with the initialisation
. 2013-01-18 14:49:56.612 Detected network event
. 2013-01-18 14:49:56.612 Opened channel for session
. 2013-01-18 14:49:56.612 Waiting for the server to continue with the initialisation
. 2013-01-18 14:49:56.628 Detected network event
. 2013-01-18 14:49:56.628 Started a shell/command
. 2013-01-18 14:49:56.690 --------------------------------------------------------------------------
. 2013-01-18 14:49:56.690 Using SFTP protocol.
. 2013-01-18 14:49:56.690 Doing startup conversation with host.
. 2013-01-18 14:49:56.690 Session upkeep
> 2013-01-18 14:49:56.753 Type: SSH_FXP_INIT, Size: 5, Number: -1
. 2013-01-18 14:49:56.753 Sent 9 bytes
. 2013-01-18 14:49:56.753 There are 0 bytes remaining in the send buffer
. 2013-01-18 14:49:56.753 Waiting for another 4 bytes
. 2013-01-18 14:49:56.753 Detected network event
. 2013-01-18 14:49:56.753 Received 9 bytes (0)
. 2013-01-18 14:49:56.753 Read 4 bytes (5 pending)
. 2013-01-18 14:49:56.753 Read 5 bytes (0 pending)
< 2013-01-18 14:49:56.753 Type: SSH_FXP_VERSION, Size: 5, Number: -1
. 2013-01-18 14:49:56.753 SFTP version 3 negotiated.
. 2013-01-18 14:49:56.753 We believe the server has signed timestamps bug
. 2013-01-18 14:49:56.753 We will use UTF-8 strings for status messages only
. 2013-01-18 14:49:56.753 Limiting packet size to OpenSSH sftp-server limit of 262148 bytes
. 2013-01-18 14:49:56.815 Changing directory to "/home/bafink".
. 2013-01-18 14:49:56.815 Getting real path for '/home/bafink'
> 2013-01-18 14:49:56.815 Type: SSH_FXP_REALPATH, Size: 21, Number: 1552
. 2013-01-18 14:49:56.815 Sent 25 bytes
. 2013-01-18 14:49:56.815 There are 0 bytes remaining in the send buffer
. 2013-01-18 14:49:56.815 Waiting for another 4 bytes
. 2013-01-18 14:49:56.815 Detected network event
. 2013-01-18 14:49:56.815 Received 49 bytes (0)
. 2013-01-18 14:49:56.815 Read 4 bytes (45 pending)
. 2013-01-18 14:49:56.815 Read 45 bytes (0 pending)
< 2013-01-18 14:49:56.815 Type: SSH_FXP_NAME, Size: 45, Number: 1552
. 2013-01-18 14:49:56.815 Real path is '/home/bafink'
. 2013-01-18 14:49:56.815 Trying to open directory "/home/bafink".
> 2013-01-18 14:49:56.815 Type: SSH_FXP_LSTAT, Size: 21, Number: 1799
. 2013-01-18 14:49:56.815 Sent 25 bytes
. 2013-01-18 14:49:56.815 There are 0 bytes remaining in the send buffer
. 2013-01-18 14:49:56.815 Waiting for another 4 bytes
. 2013-01-18 14:49:56.815 Detected network event
. 2013-01-18 14:49:56.815 Received 41 bytes (0)
. 2013-01-18 14:49:56.815 Read 4 bytes (37 pending)
. 2013-01-18 14:49:56.815 Read 37 bytes (0 pending)
< 2013-01-18 14:49:56.815 Type: SSH_FXP_ATTRS, Size: 37, Number: 1799
. 2013-01-18 14:49:56.815 Getting current directory name.
. 2013-01-18 14:49:57.002 Listing directory "/home/bafink".
> 2013-01-18 14:49:57.002 Type: SSH_FXP_OPENDIR, Size: 21, Number: 2059
. 2013-01-18 14:49:57.002 Sent 25 bytes
. 2013-01-18 14:49:57.002 There are 0 bytes remaining in the send buffer
. 2013-01-18 14:49:57.002 Waiting for another 4 bytes
. 2013-01-18 14:49:57.002 Detected network event
. 2013-01-18 14:49:57.002 Received 17 bytes (0)
. 2013-01-18 14:49:57.002 Read 4 bytes (13 pending)
. 2013-01-18 14:49:57.002 Read 13 bytes (0 pending)
< 2013-01-18 14:49:57.002 Type: SSH_FXP_HANDLE, Size: 13, Number: 2059
> 2013-01-18 14:49:57.002 Type: SSH_FXP_READDIR, Size: 13, Number: 2316
. 2013-01-18 14:49:57.002 Sent 17 bytes
. 2013-01-18 14:49:57.002 There are 0 bytes remaining in the send buffer
. 2013-01-18 14:49:57.002 Waiting for another 4 bytes
. 2013-01-18 14:49:57.002 Detected network event
. 2013-01-18 14:49:57.002 Received 397 bytes (0)
. 2013-01-18 14:49:57.002 Read 4 bytes (393 pending)
. 2013-01-18 14:49:57.002 Read 393 bytes (0 pending)
< 2013-01-18 14:49:57.002 Type: SSH_FXP_NAME, Size: 393, Number: 2316
> 2013-01-18 14:49:57.002 Type: SSH_FXP_READDIR, Size: 13, Number: 2572
. 2013-01-18 14:49:57.002 Sent 17 bytes
. 2013-01-18 14:49:57.002 There are 0 bytes remaining in the send buffer
. 2013-01-18 14:49:57.002 Read file '' from listing
. 2013-01-18 14:49:57.002 Read file '' from listing
. 2013-01-18 14:49:57.002 Read file '' from listing
. 2013-01-18 14:49:57.002 Read file '' from listing
. 2013-01-18 14:49:57.002 Waiting for another 4 bytes
. 2013-01-18 14:49:57.018 Detected network event
. 2013-01-18 14:49:57.018 Received 32 bytes (0)
. 2013-01-18 14:49:57.018 Read 4 bytes (28 pending)
. 2013-01-18 14:49:57.018 Read 28 bytes (0 pending)
< 2013-01-18 14:49:57.018 Type: SSH_FXP_STATUS, Size: 28, Number: 2572
< 2013-01-18 14:49:57.018 Status code: 1
> 2013-01-18 14:49:57.018 Type: SSH_FXP_CLOSE, Size: 13, Number: 2820
. 2013-01-18 14:49:57.018 Sent 17 bytes
. 2013-01-18 14:49:57.018 There are 0 bytes remaining in the send buffer
. 2013-01-18 14:49:57.018 ;d;4096;2013-01-18T13:38:10.000Z;"bafink" [1111];"nogroup" [65534];rwx------;0
. 2013-01-18 14:49:57.018 ;d;4096;2013-01-18T13:38:10.000Z;"bafink" [1111];"nogroup" [65534];rwx------;0
. 2013-01-18 14:49:57.018 ;d;4096;2013-01-18T13:38:10.000Z;"bafink" [1111];"nogroup" [65534];rwx------;0
. 2013-01-18 14:49:57.018 ;d;4096;2013-01-18T13:38:10.000Z;"bafink" [1111];"nogroup" [65534];rwx------;0
. 2013-01-18 14:49:57.127 Startup conversation with host finished.
Description: screenshot of remote directory
