Did anything actually get added/removed/changed? This would seem to indicate that you're using the old code to access Special:Version - you need to actually overwrite the files/update your symlinks/etc.
The old version was 1.10.1, and when I ran the script from the command line, everything seemed to be fine-- the only odd thing I noticed was for an extension I had; it didn't like the include line in my LocalSettings.php, even though it's correct (and displays properly in Special:Version). And I did upload all the new files and everything-- so what else would be left that would cause the Special:Version to not read the correct update?
Here's what the update.php script says (though this is a second go-around; I already did it once before and I'm not sure if this is exactly the same): <br /> <b>Warning</b>: include(./extensions/Bad-Behavior/bad-behavior-mediawiki.php) [<a href='function.include'>function.include</a>]: failed to open stream: No such file or directory in <b>/home/usernamehere/public_html/wikific/LocalSettings.php</b> on line <b>17</b><br /> <br /> <b>Warning</b>: include() [<a href='function.include'>function.include</a>]: Failed opening './extensions/Bad-Behavior/bad-behavior-mediawiki.php' for inclusion (include_path='.:/home/usernamehere/public_html/wikific:/home/usernamehere/public_html/wikific/includes:/home/usernamehere/public_html/wikific/languages') in <b>/home/usernamehere/public_html/wikific/LocalSettings.php</b> on line <b>17</b><br /> MediaWiki 1.10.1 Updater
Going to run database updates for usernamehere_Az01-wf_ Depending on the size of your database this may take a while! Abort with control-c in the next five seconds...0 ...hitcounter table already exists. ...querycache table already exists. ...objectcache table already exists. ...categorylinks table already exists. ...logging table already exists. ...user_newtalk table already exists. ...transcache table already exists. ...trackbacks table already exists. ...externallinks table already exists. ...job table already exists. ...langlinks table already exists. ...querycache_info table already exists. ...filearchive table already exists. ...querycachetwo table already exists. ...have ipb_id field in ipblocks table. ...have ipb_expiry field in ipblocks table. ...have rc_type field in recentchanges table. ...have rc_ip field in recentchanges table. ...have rc_id field in recentchanges table. ...have rc_patrolled field in recentchanges table. ...have rc_old_len field in recentchanges table. ...have user_real_name field in user table. ...have user_token field in user table. ...have user_email_token field in user table. ...have user_registration field in user table. ...have log_params field in logging table. ...have ar_rev_id field in archive table. ...have ar_text_id field in archive table. ...have page_len field in page table. ...have rev_deleted field in revision table. ...have img_width field in image table. ...have img_metadata field in image table. ...have img_media_type field in image table. ...have ss_total_pages field in site_stats table. ...have iw_trans field in interwiki table. ...have ipb_range_start field in ipblocks table. ...have ss_images field in site_stats table. ...have ipb_anon_only field in ipblocks table. ...have ipb_enable_autoblock field in ipblocks table. ...have user_newpass_time field in user table. ...have user_editcount field in user table. ...have rc_deleted field in recentchanges table. ...have log_id field in logging table. ...have log_deleted field in logging table. ...have ar_deleted field in archive table. ...have ipb_deleted field in ipblocks table. ...have fa_deleted field in filearchive table. ...have rev_len field in revision table. ...have ar_len field in archive table. ...have rev_parent_id field in revision table. ...have pr_id field in page_restrictions table. ...already have interwiki table ...indexes seem up to 20031107 standards Already have pagelinks; skipping old links table updates. ...image primary key already set. The watchlist table is already set up for email notification. ...watchlist talk page rows already present ...user table does not contain old email authentication field. Logging table has correct title encoding. ...page table already exists. revision timestamp indexes already up to 2005-03-13 ...rev_text_id already in place. ...page_namespace is already a full int (int(11)). ...ar_namespace is already a full int (int(11)). ...rc_namespace is already a full int (int(11)). ...wl_namespace is already a full int (int(11)). ...qc_namespace is already a full int (int(11)). ...log_namespace is already a full int (int(11)). ...already have pagelinks table. ...templatelinks table already exists No img_type field in image table; Good. Already have unique user_name index. ...user_groups table already exists. ...user_groups is in current format. ...wl_notificationtimestamp is already nullable. ...timestamp key on logging already exists. Setting page_random to a random value on rows where it equals 0...changed 0 rows Checking for additional recent changes indices... ...index on ( rc_namespace, rc_user_text ) seems to be ok ...index on ( rc_user_text, rc_timestamp ) seems to be ok ...redirect table already exists. Checking for backlinking indices... Checking if pagelinks index pl_namespace includes field pl_from... ...index pl_namespace on table pagelinks seems to be ok Checking if templatelinks index tl_namespace includes field tl_from... ...index tl_namespace on table templatelinks seems to be ok Checking if imagelinks index il_to includes field il_from... ...index il_to on table imagelinks seems to be ok ...page_restrictions table already exists. Deleting old default messages (this may take a long time!)...Done Checking site_stats row...ok. Purging caches...done. Done.
Nothing looks unusual to me, but then again, I don't have the trained "Wiki eye" to catch the one little thing that might be messing up the Version number (or anything else I have yet to find) -Azurite