If your religion is not an -ism name, there are places it needs to have a "the", and places where it shouldn't have one. This needs to be addressed as part of this change and rewritten for consistency, or you're just changing the places where it sounds bad.
please give an example of when having a "the" would be bad. I am not saying your wrong I just can't think of any times when the church of humanity sounds worse than church of humanity.