I am late, the OP has left the forum, yet:
When you say "an external file server managed through AD that each user has space on in their own folder", do you mean the network file system SMS/Samba, now called CIFS where each user has his own private space? Sorry, haven't encountered that before, can't see one in the core https://docs.moodle.org/en/Repositories either, except for https://docs.moodle.org/en/WebDAV_repository, if you can activate WebDAV in addition to CIFS.
BTW, hasn't the "Cloud" replaced this? You can have a private cloud with ownCloud, Open Source. See also the parallel discussion: "WebDAV using Owncloud: Linking to File directly doesn't work..." https://moodle.org/mod/forum/discuss.php?d=317285.
Create repository to external file server
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