Took me a long time to figure this out, but there is a pretty serious bug in the installer.
When you get to the DB configuration part, there is a box to specifiy the Service Name, or if you check a box it you can specify the Oracle SID. It doesn't matter if you check the box or not. It will always go after the SID and put that in your configuration files, and it will break if your DBAs have a standard to have a stort name for the SID and a FQDN for the Service Name.
The installer check log went after and put in the configuration files.
jdbc:oracle:thin:@servername:1521:SID
Then the configuration files goes after
jdbc:oracle:thin:@//servername:1521/SID <--- that is the Service Name format.
Workaround put in your SID, click Next, and then Backwards. You will now have the greyed out jdbc url, and if you click on the edit box, you can then put in the correct format. Make sure you change the Service Name field to the correct Service Name to match.
You will have to change,
jdbc:oracle:thin:@servername:1521:SID to jdbc:oracle:thin:@//servername:1521/Service Name