After installing the SAML v2 Plug-in for Federation Services Patch 3 on Access Manager 7.0 patch 5, the web.xml file has been unnecessarily modified. This will not allow you to access the server after deployment. Uncomment the following code in the web.xml file.
<!-- <filter> <filter-name>amlcontroller</filter-name> <filter-class>com.sun.mobile.filter.AMLController</filter-class> </filter> <filter-mapping> <filter-name>amlcontroller</filter-name> <url-pattern>/*</url-pattern> </filter-mapping> -->
WORKAROUND: The SAML v2 Plug-in for Federation Services will try to comment out this code again. To alleviate this from happening, edit the web.xml file in the staging directory AFTER installation is complete, and regenerate the WAR using the jar command.