The following skips that have been patch for the latest patch update (1:02):

Dragon Gate Time Device - Small gate Pumpkin gorge - Green rune

Does this mean these skips have been patched out and can no longer be done or are they still in the game and are just not accepted for Patch 1:02?

You can still do those skips, but they will be accepted into the 1:00/1:01 category.

The latest patch runs will be accepted into the 1:02 category.