The areas that are raised on the mintmark, are from punch damage to the punch that makes the mintmark. Not it does not create a duplicate of any area on the mintmark? It is common to see the 'S' mints with a damaged punch issue. Even on a RPM:

Note in the lower loop, you can see mintmark damage, doubled on the affected area. Where there is not damage, you see the doubling. (Note the top enlarged part of the RPM) On your coin, there is not duplication of the design, just showing the areas of the punch that were damaged.

This mintmark punch damaged is from punching the mintmark on the hardened dies. Thus after punch several times on the dies, they get altered from the hammered into the die.
