I have compiled a custom php.ini and php.cgi for two domains.
They were working fine earlier today and then later this afternoon my domains (which use scripts with ioncube loaders) reported errors in loading ionCube.
I recompiled php.ini and php.cgi and made sure the handlers were in .htaccess, and followed all of the Wiki instructions.
The phpinfo file shows that ionCube loaders aren't present and it's not reading my php.ini or php.cgi.
One of my phpinfo.phps.