You will need to subtract that from the pocket geometry.
For the underlying principle see:
First, open the file:
Second, select the geometry which makes up this region:
and duplicate it:
and then if need be, draw in geometry where things will need to be cut/trimmed:
Select everything:
and use Trim Vectors:
to allow one to click to remove portions which are not wanted:
OK
Use Join Vectors to close things:
Yes
shift-click to remove the closed geometry from the selection:
Delete
Then assign a toolpath:
Attached as a v7 file.
Nathan James Sign_v7.c2d (1.6 MB)