After upgrade to the version 3.6.2, PHP 5.4 does not work for any domain.
/hsphere/local/config/httpd2/httpd.conf.tmpl.custom on the CP server was not changed by upgrade and has no sections related to PHP 5.4.
Add all missing sections from upgraded
httpd.conf.tmpl file to
httpd.conf.tmpl.custom. For example:
ScriptAlias /php54bin /hsphere/shared/php54/bin <Directory "/hsphere/shared/php54/bin"> AllowOverride All Options FollowSymLinks Order allow,deny Allow from all </Directory>
Than restart CP and update all the affected boxes.