[dokuwiki] strange problem with mediamanager

Hi.
I'm using DW 2008-05-13, and am having a strange problem with the media manager that might not be detected under normal Dokuwiki usage.
I use individual Wiki's for course web pages in our Department. I have a filesystem hierarchy something like this: 

course_archive/2007-08/F
course_archive/2007-08/W
course_archive/2007-08/S
course_archive/2008-09/F
.
.
.
... representing courses in 2007-08 fall, 2007-08 winter, 2007-08 summer, etc. 

Each course is its own Dokuwiki (as part of a farm).
I then have one symlink at the filesystem level, "course", that points to the current session and term: 

course -> course_archive/2008-09/F

... as a shortcut.

(That is, /course/1234 and /course_archive/2008-09/F/1234 are the same)
In all cases, if you visit the wiki through /course or /course_archive, you get the same thing. Similarly, if you edit it through either /course, or /course_archive, you get the same thing -- well, except for one detail -- the media manager. If you open up the media manager through the "course" link to a Wiki, it displays all the media in the Wiki, but the section at the top for uploading a file vanishes. If you visit the Wiki through the course_archive, the media manager works as expected. To make things even weirder, if you login to the course_archive version, don't logout, and then login to the course version, the media manager works fine.
When building my Wiki farm, I explicitly set the $conf['savedir'] in local.protected.php to be the full path to the Wiki in course_archive so that this type of problem would not occur!
To add to the weirdness, when I initially set the Wikis up, I can use the media manager to add images on either "course" or "course_archive" version of a course, but eventually, something happens that breaks that functionality, and I'm not sure what it is. 

any ideas?

jas.
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