I still don't understand your problem. What are you trying to point out ?
The pallet shining through the airplane fuselage cannot be solved easily, because it's caused just be not having a pallet small enough for your airplane type.
Yes, can can rotate the axis of the door, but you shouldn't: it's ALREADY correct (in your first screen). The green arrow should point to the OUTSIDE of the door so, the orientation is correct.
Try to move the Cargo 1 to the left side, instead of Cargo 2, and use Cargo 2 on the right/aft cargo door.