After setting up the transcoder I can get all individual streams running of the two stream groups. I can also see the video on iOS and test the Smooth Streaming from Wowza example players from Wowza Streaming Engine Manager.
But no matter what I try I cant get the Adobe RTMP example to work with ngrp. I tried:
A .smil file and the ngrp (StreamNameGroup) of the Wowza Transcoder are both MediaLists. The client is seeing the same thing. Server-side MediaList does not work in Flash Dynamic Streaming, but there is that convenience method of generating the client-side smil file from a server-side smil or ngrp (or amlst, dynamic MediaList).