yes crystals can manipulate energy. they can act as conductor, semi-conductor, super-conductor, and amplifier of energy. they can focus and scatter light. they can also resonate with external frequencies and store energy/information, etc. especially quartz crystal.
in regards to the orgone, if it's made from quality materials and engineered by someone who understands energy and circuits, then yes it can affect the electromagnetic field in its immediate environment. and as you know, if you change the field you change the atoms in that field.