Have figured out a bit of a workaround, Matt if you have a better way to do it please advise.
In domainchecker.tpl change the line mentioned above to
<form method="post" action="{if $systemsslurl}{$systemsslurl}/{/if}patchstep2.php">
Then create a new php file named patchstep2.php in the root directory and put the following:
<?
@session_start();
$_SESSION['frm_domaintype'] = 'register';
$_SESSION['frm_domainsearch'] = $_POST['domainsearch'];
$_SESSION['frm_domains'] = array();
foreach ($_POST['domains'] AS $Domain) {
$_SESSION['frm_domains'][] = array('domain'=>$Domain);
}
$_SESSION['frm_fromdomainchecker'] = 1;
header("location: order.php?step=2&domainonly=true");
?>
Not particularly the best method, but it seems to work. You may also want to edit the order templates to remove the link to package options.