Yes. Go to the lowest subdivision level and create a blank texture. Make it 1024x1024, since that is the size that ZBrush will use for the alpha. After that, press Tool>Geometry>GUVTiles.
Your model is now remapped and ready to go.
After you’re done with the sculpting and whatever else you need the stored masks for, you will want to remap your model again before creating texture or displacement maps. Unless, that is, you plan to create the map at 1024x1024 size. The mapping will always be calculated for the size of the currently-selected texture, and won’t work quite as well with other texture sizes.