I don't know why the upgrade would have anything to do with it but it sounds to me like your night mailboxes are accessed through Express Messaging and the Personal Verification is playing. If they are being accessed that way and you don't have a Personal Verification recorded, then it will play the mailbox number before playing the greeting. There are 2 fixes for this that you could try:
1. Record a Personal Verification for those mailboxes or record silence for the Personal Verification.
2. Change the way they are accessed from Express Messaging to Call Answering. In other words, use a blind transfer to a dummy ACD NCFW to CallPilot. Then the greeting only will play, not the Personal Verification.
War Eagle!
Lions Baseball '09!