Re: 4 color registration marks
A red slash through the pencil? Does this mean that you can't write on that layer? Unlock the layer.
To get your marks you are creating in InDesign (using the pen tool not the marks put on during printing out), you'll need to select the marks and choose the fill to be None and the Stroke to be Registration color (I make mine about .5pt thick). If you print out more than one color, the the marks should be in all colors printed.
Don