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Nothing like finally posting a question to make you immediately figure it out.
From looking at the scripts at: https://github.com/ros-windows/win_ros/blob/groovy-devel/rosdeps/win_python_build_tools/scripts/winros_init_build.py you can add an "underlay" when setting up the workspace:
winros_init_build -u c:/opt/ros/groovy/x86
That added a Cmake prefix variable to the config.cmake that winros_init_build makes that allowed it to find the main ros workspace and everything built correctly afterwards.