I'm not sure if this will be possible with the MarkPoons, due to the materials or construction, but only because of my unfamiliarity with them from a hands-on perspective.
What I can say fairly confidently, is that the the clean finger holes (this is starting to sound dirty, we need a name for these things...QUICK :lol) are achieved on the Officially released shoes by using 2 pieces of the grey fabric, similar to the below (fugly) diagram:
In the above, the two openings would be sewn along their edges, then flipped inside out, and the smaller pieces fed into the holes and glued down inside to be covered by the leather(ette).
This will give you the necessary clean edge AND the seam that is visible on the official Nikes on the interior of the finger hole.
-Nick
PS: Obviously, the outer fabric would continue on, unlike the black lines in my diagram.
PPS: I vote that we call these "finger pulls" so we don't have to keep using the word "hole" or even worse "finger hole."