You can enter the commands manually on the router and see why they did not take. Also, can do a debug ccm-manager config-download to see the config being applied when it is done. The router TFTPs the config from the CCM and then basically pastes the commands in to the router behind the scenes.
Do you have a Controller 0/3/0 interface, that may be the problem. I have seen this when the call manager has this module configured on the CCM side, but physically there is nothing in that slot on the router so the commands fail to take. If this were the case, you should also have a database configuration error in the event log on the call manager server at around time the ccm-manager cfg is attempted.
Are you getting this error “Installer User Interface Mode Not Supported. The installer cannot run in this UI mode. To specify the interface mode, use the -i command-line option, followed by the UI mode identifier. The value UI mode identifiers...
The below trick might come handy when you have to add a new node to a cluster but you don't have or is unsure of the security password for the publisher. This procedure has been around for ages.
1) Login into the CLI of the Publisher.