There is a 'Suppress Component' feature on component properties that should allow you to do exactly that.
Checkboxes are provided that allow you to suppress a particular component from: - parts lists - scm to/from pcb - IDF export - all plots - plotting shapes - plotting text
Click on Component to highlight it. Then "Properties" (Alt+Enter),then "Values". Add Name= Value, (from drop down menu) then type Do Not Poulate in value box. Make sure check box is ticked.