Once fully developed, I envision cnc painting workflow to be very similar to the workflow used for 3D printing and cnc milling. 

1. Create a template file with using your preferred software. A bitmap image in the case of cnc painting using an image processing software like GIMP, Adobe Photoshop, Corel Paintshop, etc. A 3D model file in the case of 3D printing and cnc milling using solid modelling software llike Onshape, Autodesk Fusion 360, Solidworks, etc.
2. Import the template file into the computer aided manufacturing software. The If Then Paint software for cnc painting. Splicing software like Cura or Simplify3D for 3D printing. Software with tool path creation capabilities like Autodesk Fusion 360 or Solidworks for cnc milling. 
3. Select which machine you are using. The software either loads the predefined machine parameters from a database or asks you to define the parameters for the machine.
4. Make adjustments to the parameters that effect the tool path operations.
5. Run a simulation that shows the result of the tool path operations. Observe how adjustments in step 4 affect the final product.
6. Continue step 4 and 5 until you have a achieved a desirable result.
7. Export the tool paths from the software as gcode.
8. Upload the gcode to the cnc machine.
9. Prep the cnc machine with any raw material needed.
10. Run the gcode program on the cnc machine.