I have seen this happen when zencart was installed via a CPANEL script, and the url's for the store were improperly recorded in the config.php files.
Check your configuration files and look for something like this: http://www.mystore.com//myadmin
See that second pair "//" ??? That should only be one like this: http://www.mystore.com/myadmin
I saw this very recently with another user and was able to fix it with just a few clicks to correct cofigure.php, just be sure to fix both copies in the admin and includes directories.
This will also mess with EP 1.2.5.4 which has come up from time to time. If this isn't the cause, I'd have to look at your install. You can PM me and I'll see what I can do to help.
-Chadd
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