We had a issue where domain which is using cloudflare and server had engintron those domains were not working correctly

Engintron does support Cloudflare . There are few custom rules which needs to be setup from

WHM > Plugin > Emgintron  > Edit your custom_rules for Nginx

For domains which have dedicated IP below is the rule which needs to be added

if ($host ~ “oxyxxxxx.com”) {
set $PROXY_DOMAIN_OR_IP “173.1xx.xx5.xxx”;

}

Where you need to set right domain name and  right IP associated with domain

If using a shared IP address below is the rule that needs to be added in

Edit yourcustom_rules for Nginx and add below statement

set $PROXY_DOMAIN_OR_IP “XXX.XXX.XXX.XXX”;

Where you need to set shared IP in above example