Use the 2D Pocket strategy with a 4 mm flat end tool to machine the counterbore on the single 4.5 mm hole.
2D Milling panel
2D Pocket
. For this pocket, a flat tool with a diameter less than 4.5 mm is required to plunge into the pre-drilled hole.
button to open the Tool Library dialog box.
to close the Tool Library dialog. 
On the Passes tab, change the following parameter values and leave all others at their defaults.
To make sure that the tool plunges at the center of the hole, disable the lead-in.
Now, adjust the lead-out slightly to obtain a smoother exit.
Finally, make the tool plunge into the pre-drilled hole.
at the bottom of the Operation dialog box, or right-click in the graphics window and select OK from the marking menu, to automatically start calculating the toolpath. The toolpath should appear as shown below.

Continue to To Machine the Countersinks...