diff --git a/mkdocs/themes/readthedocs/base.html b/mkdocs/themes/readthedocs/base.html
index 3df55b22..5706857a 100644
--- a/mkdocs/themes/readthedocs/base.html
+++ b/mkdocs/themes/readthedocs/base.html
@@ -11,13 +11,12 @@
 
   <link rel="stylesheet" href="{{ base_url }}/css/theme.css" type="text/css" />
   {% for path in extra_css %}
-    <link href="{{ base_url }}/{{ path }}" rel="stylesheet">
+    <link href="{{ path }}" rel="stylesheet">
   {% endfor %}
 
-  <script type="text/javascript" src="{{ base_url }}/js/theme.js"></script>
   <script src="https://cdnjs.cloudflare.com/ajax/libs/modernizr/2.6.2/modernizr.min.js"></script>
   {% for path in extra_javascript %}
-    <script src="{{ base_url }}/{{ path }}"></script>
+    <script src="{{ path }}"></script>
   {% endfor %}
 
   <style>
diff --git a/mkdocs/utils.py b/mkdocs/utils.py
index 8a89fd94..b257038b 100644
--- a/mkdocs/utils.py
+++ b/mkdocs/utils.py
@@ -9,6 +9,7 @@ and structure of the site and pages in the site.
 
 import os
 import shutil
+from urlparse import urlparse
 
 
 def copy_file(source_path, output_path):
@@ -137,10 +138,10 @@ def create_media_urls(nav, url_list):
     final_urls = []
     for url in url_list:
         # Allow links to fully qualified URL's
-        if '//' in url:
+        parsed = urlparse(url)
+        if parsed.netloc:
             final_urls.append(url)
         else:
             relative_url = '%s/%s' % (nav.url_context.make_relative('/'), url)
             final_urls.append(relative_url)
     return final_urls
-