@FenTaylor - could you open a ticket with our Technical Support team so we can investigate that?
# php -- BEGIN cPanel-generated handler, do not edit
# Set the “ea-php56” package as the default “PHP” programming language.
<IfModule mime_module>
AddHandler application/x-httpd-ea-php56 .php .php5 .phtml
</IfModule>
# php -- END cPanel-generated handler, do not edit