Also, as I look at this code, it occurs to me that it would make the
code a lot simpler if we simply defined a bunch of object variables for
the most commonly used options.  So, in the init() method for
ConfigClient:

    def __init__(self, deployer):
        self.deployer = deployer
        self.master_dict = deployer.master_dict
        self.clone = config.str2bool(deployer.master_dict['pki_clone'])
        self.subsystem = deployer.master_dict['pki_subsystem']
        self.subordinate ...

The the above becomes:

        # Security Domain
        if ((self.subsystem != "CA" or self.clone or self.subordinate) and\
             self.standalone):
            self.set_existing_security_domain(data)
        else:
            self.set_new_security_domain(data)

We could start simple and do just the ConfigClient class, although the
ConfigurationFile class could really use this kind of simplification.