This is how we've done it:
1) Go to base manager, configure base manager to go to an external source(s).
2) Go to Element Manager, and set the CS to sync to the SS IP address(es). They should both already be in there with the marking * that they cannot be removed.
3) If you're lucky, below that, your external IP source(s) you put in from Base Manager will be in the list - if not, add them there too. Save your changes.
Do LD 117 STAT NTP - it should be configured properly; if you can print that out for us.
To force a sync right then and there, do SYNC NTP MANUAL (which will leave it in background mode but do one on the spot), and see if it works.
So basically CS goes to SS, SS software clocks off Linux base, and Linux base clocks off your real NTP servers.
The Linux NTP daemon runs about every 13 minutes to your NTP server(s), and the CS will sync to the SS every 24 hrs (midnights I believe).
Good luck, post pics and your CLI output if you need help; we've gone round on this with several customers.
-Matthew
Matthew - Technical Support Engineer