I had this same problem. The fix was to reload the Linux on the Signaling Server. I would undeploy and make sure the CS1000 system is out of the UCM. Then reload the Linux on the SS, install the first 3 patches via CLI then register it into the security domain. Then push the Linux SP to it from UCM. Then re-deploy the apps, push the SP again so it patches the newly deployed apps. Once that done try and configure the Node again. The trouble I had was the IP address in the XML file of the deployed applications had the wrong IP address of the Signaling Server in it so the SS was not being recognized in EM. I had ETAS go in and change the file for me in the Linux so that I could avoid reloading the Linux. His recommendation was that if this happened again to go ahead and reload the Linux in the SS. Once the Linux server is deployed and you can get into EM, the UCM portion of controll is over and you should focus all your troubleshooting on the Linux SS piece..........Hope this helps.