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I've asked TSA people similar questions when they checked my bag. He said that the item was blocking view of what was underneath it.

I'd guess it's not the packaging, but a big piece of steel blocking the xray view.

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The x-ray machine aren't 360?

If 360, I wonder does the operator perhaps not trust it?

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probably different fidelity of scanner, I'd guess. This was in 2018-2019
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