Web Forms :: Menu's Images And Links Broke On URL Rewrite?

We recently added a URL rewrite rule for a domain to run off of a share(actual name) directory. Well the domain share.site.com references the actual virtual for www.site.com/share as far as the url rewrite goes, because the menu and images must come from www.site.com/images and such. We were fine by adding in a base tag of <base href="www.site.com" />, but we started adding in modal popup and update panels then a bunch of javascript errors started bombarding the site. Is there a reason why the URL Rewrite doesn't use the virtual directory when the URL rewrite happens? I thought they fixed this.

Message: ASP.NET Ajax client-side framework failed to load.
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Message: Syntax error
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Message: 'Sys' is undefined
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Message: 'WebForm_SaveScrollPositionSubmit' is undefined
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<rule name="share.site.com" stopProcessing="true">
<match url=".*" />
<conditions>
<add input="{HTTP_HOST}" pattern="^share.site.com" />
<add input="{PATH_INFO}" pattern="^/share/" negate="true" />
</conditions>
<action type="Rewrite" url="share{R:0}" />
</rule>
<rule name="sharesite.groupsite.com" enabled="true" stopProcessing="true">
<match url=".*" />
<conditions>
<add input="{HTTP_HOST}" pattern="^sharesite.groupsite.com" />
<add input="{PATH_INFO}" pattern="^/share/" negate="true" />
</conditions>
<action type="Rewrite" url="share{R:0}" />
</rule>