Hi Harry,
To make sure your parameters are kept separate you need to make sure only the parameters you want recorded into your palettes are "Tagged".
Parameters are tagged automatically when you adjust the encoders. To "Untag" parameters hold CLEAR + Jog the parameters' encoder wheel. You will notice it will go from having a White background to a blue background in the LCD above the encoder.
Therefore you will need to record your Gobo position palette, and then untag the Gobo encoder, and then record your prism encoder. These will now be separated, and you can then make a separate palette for both of these with the Gobo/ Prism parameters back to default.
This would mean you have a palette for Gobo In, one for Gobo Out, one for Prism In, one for Prism Out.
Hope that helps
Edward