The surface of a granite plate is porous, kind of like concrete. Dragging aluminum on the surface can embed aluminum, not only leaving a bright mark (especially visible on black rocks) but potentially degrading the accuracy.
Keep in mind that in this case "accuracy" means, depending on the plate, fifty millionths of an inch. That's thinner than a fingerprint on glass.
The guy that scolded you may have been a bit overzealous, but it's very common in shops of all kinds for non-machinists (or any other employee) to treat a surface plate as any other flat surface. Klunking tools down on it, setting your cup of hot coffee on it, leaving your lunch on it, etc.
It doesn't take much mistreatment to reduce the accuracy of the plate, and if the shop is making high-end accurate parts, or even just doesn't want to pay to have the thing recalibrated twice a year, they tend to get a little zealous about it.
Treat them gently, keep them clean, don't put anything but the proper tools on it, and keep it covered when it's not in use.
Doc.