Those that are missing on the web server version are all those in the awScripts directory:
<link type="text/css" rel="stylesheet" href="/awScripts/Window1.3/Themes/default.css" />
<link type="text/css" rel="stylesheet" href="/awScripts/Window1.3/Themes/all.css" />
<link type="text/css" rel="stylesheet" href="/awScripts/AW2.6.0/styles/system/aw.css" />
<link type="text/css" rel="stylesheet" href="/awScripts/Protofish/Protofish.css" />
<link type="text/css" rel="stylesheet" href="/awScripts/FoxInCloud.css" />
and
<script type="text/javascript" charset="utf-8" src="/awScripts/Prototype1.7.js"></script>
<script type="text/javascript" charset="utf-8" src="/awScripts/event.simulate.js"></script>
<script type="text/javascript" charset="utf-8" src="/awScripts/Scriptaculous1.9.0/scriptaculous.js?load=effects,dragdrop"></script>
<script type="text/javascript" charset="utf-8" src="/awScripts/Window1.3/window.js"></script>
<script type="text/javascript" charset="utf-8" src="/awScripts/Protofish/Protofish-min.js"></script>
<script type="text/javascript" charset="utf-8" src="/awScripts/SWFUpload/SWFUpload2.2.0.1.js"></script>
<script type="text/javascript" charset="utf-8" src="/awScripts/AW2.6.0/lib/aw.js"></script>
<script type="text/javascript" charset="utf-8" src="/awScripts/FoxInCloud.js"></script>
We initially missed uploading the asScripts directory to the web server, but we have now done so (as a regular directory under the site root rather than as a mapped directory like on the development machine.