The Reorder Loops command will reorder all the loops in the selected object so that they are properly ordered as follows:

1. Outer-most loops run clockwise and are shown as blue in wireframe mode
2. Inner loops run counter-clockwise and are shown as red in wrireframe mode.
3. Each subsequent nested inner loop alternates between counter-clockwise and clockwise.

This is critical to the correct population of the artwork. There are multiple opportunities to Reorder Loops when you import your artwork, but you can always run this function in the Edit Menu.

If after running this function, the loops do not order correctly, you can use the Loop Edit Tool to change the direction of an individual loop.