They do not appear in the report til you "use" the D-links limit breaks.
Ventus: Finish / Ventus: Air Ride. In the D-link section on the menu go to the D-links and if you have the evolved ones you can change them to their older versions with the Left Trigger button and when you use them they should appear in the report as they should.
Try this and let me know.
EDIT: Also for petes D-link. Go to the command board via the menu on the world screen. Summon his actions in the game via the purple and yellow tiles and get Captain Dark or Captain Justice, and after that you get the "Pete" D-link. hope this helps.
Note: The D-link is only obtainable in the command board on the world screen not the mirage arena one. I had a difficult time learning that fact as i raged over not getting it after playing the damn game for hours and hours. and then i tried the above and i finally got it.