I re-downloaded Blackberry Alerts. You might try that, unless someone else has another idea.
You can at least set colored flashing notifications. So I now have my phone ringing, with a colored alert for voicemail messages. For emails, there is no sound or vibrating, but I at least have another colored flashing light. You can also add more color notifications for other things, such as sms, missed calls, etc.
Still seems I can't have the phone ringing and also email message notification vibrating without sound (while the phone ringer is set to on). Pretty confusing.