I've done everything from that list
(except for all of the Arcade trophies)
I've talked to every NPC, crafted everything, dropped everything, got all the cards, killed all enemies on Hard, collected all treasures, but I still miss those 2%... all I can think of is that I'm missing the access to these places(inside red squares), but I thought that their access weren't implemented yet, so, anyway:
1 - Trunk at Seasonne.
2 - Right Wall inside Temple of Seasons' main room.
3 - A cave to the right from the cave with the hole and Stone for the puzzle below, at Seasonne.
Is there any way to access (any of) them? Send me a PM if you wish, to avoid spoilers to the others.
Oh yeah, as you can see, I also posted an image from that 'Perfect Guard' test room, found inside the Flying Fortress. There are 4 'check' squares, apparently, but only one is lightened up. Is there any way to lighten up the other ones, or are they just scenario?
Thanks.