The Nerd said:

I hate the ship boxes. If you don't know what I'm talking about, put in BD IV and go to where the Falcon takes off from Tatooine. Watch the Star Destroyers carefully and you'll see some weird brown areas. I hate those. They're in every shot of a ship.

These boxes were not in the original release VHS's, they're not in the SE's, and they're not in the original release DVD's from 2004. If they were in the original version, I could understand that, all the limits of technology could not erase them.

Those "boxes" are an artifact of the original effects, they've been there from day one. They're called "garbage mattes". I'm surprised you're seeing them in the Bluray, seeing as the blacks levels are f***ed up, you shouldn't be able to see them. Whereas you could've seen them in one of the VHS releases, as those releases were brightened to compensate for old crt sets.

Diagnosis: your tv is not properly calibrated.