What's the best strategy ?

[EddyCurrent]

I think Artcam express will let you do this.? But don't hold me to it.!

It looks okay but as usual the basic version just lacks the features required and when you start adding the modules you might as well have gone for the top version.
I think I'm going to have to run two lots of G-code, one from a 3D CAM such as DeskProto and one from a 2D Cam such as Vectric Cut2D.
As Gerry says if the origins match then all should be well.

Of course a 'pocket' is just a 'depression' for 3D CAM software but it won't generate the most effective or best toolpaths for that part of the project.