That was it, sorry I forgot to check the documentation.
I've tested this on a couple systems. Using the "Commander" Style interface timestamps show up as being an hour after they were really changed. If I log in with putty the files show to have the correct timestamp. I verified this on 3 linux servers.
Is this an option I can change somewhere, is it trying to account for daylight savings time? Any help would be appreciated.
Windows: XP Pro 32-Bit
Transfer Protocol: SFTP-3