If it says Auto i'm assuming your car has an automatic gearbox. If it doesn't then I'd guess that it was switched to manual at some point and the DVLA were not told. But as you're asking about a conversion I assume it is an auto.
You can do a conversion, but probably works out cheaper to just sell your car and get a manual. You would need a new steering column, gearbox, clutch flywheel (Autos run a flexplate), starter, gear linkages, shifter, clutch cable, I believe a new speedo cable, brake and clutch pedal, driveshafts, gearbox mount (Autos run a different mount), You would also need to loop the Park neutral safety switch wiring or it'll never start. I think that's about it.
I'd advise just buying a manual car, or if you're attached to this particular car, buy a manual and switch the gearboxes over. If you're not doing this yourself it'll likely cost more than the car is worth to do.
You can spray the body kit. I just sprayed mine recently. If you want them to remain the black, use a satin black. Look out on eBay for the bump strips, or ask someone who is breaking a scirocco. Also worth putting an ad up in the wanted section here.