In the mosaic function you have a label with Variables & Conditions, there you have to select with variables you want to have as bands in your output mosaic and the combination (AND/OR). Have you checked that you are using the right logic?
I have similar problem to mosaic 2 scenes of S3 OLCI. I get the mosaic but i can not see adg443 band mask. I have the raster but only if use adg443 color classification show me same value for all pixels. :S
For getting help on the mosaic operator.
However, the mosaic is a bit complex to configure.
You can save the configuration from the GUI of the Mosaic (File/Save Parameters…) or
you use the GraphBuilder, save the graph and andapt later the xml file.