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I just measure the box (sorry it took me so long time). The length of the middle of the box (from engine to the end of the bow of ship) is 44,5 mm.
The X-Wing in the same place when measured are:
First one is 45mm.
Second one is 45,3 mm.
Third one is 45,5 mm.
Forth one is 45,2 mm.

So, it's the 3d printer fault?