You only need to add a vector around the dome if you want to check the box that says "selected vectors" when you do the roughing/finishing paths. Otherwise, just select the 3d dome itself and check "model boundary" instead when you do the toolpaths.
Make sure your height doesn't exceed your material thickness.
If you're doing a dish shaped then on the modeling tab you check the U (2nd from the left).
If you're doing that and getting weird results, then make sure you haven't played with the base height.
Other than that, I can't guess without seeing the crv file.
I just read this:
hjskip wrote: I end up with is a cylinder 2" in diameter that goes into the wood .9 inches. It is cylindrical not dome shaped.
You are creating a 3d toolpath right? You're using the roughing and/or the finishing toolpaths? The ones that say 3D Roughing and 3D finishing when you hover your mouse over them?
Because what you are describing sounds suspiciously like someone selecting that circle he added around the dome, and then creating a 2D pocket toolpath....