In close shots you could see the difference, but mostly the ships were too far off, too small in the shots. And everything is going so fast, you can't properly make out who's who? Also, the Naboo Fighters are also gray on the bottom.
Trust me, I'm not the only one who considered this a problem. The OT had cleverer design to distinguish goodies and baddies.
No, there were some crucial problems with that rough cut. VERY crucial problems, namely that everythingws quite incoherent. That it told several stories that seemed very apart from each other. And then there were things like action, drama and humour following each other abruptly and inappropriately. Trust me, I KNOW that Lucas and Burtt were not happy at all with the storyline. I'm not talking about effects or design here, I mean that's excellent all that. No. it's about the story.
And the same thing was a bit in the other docs. Lots of between the lines stuff, but there was a serious story problem with that rough cut. I was surprised by the candor of showing that. And they fixed a lot, but definately not all of it.
Also, you could see that they wanted a lot of stuff in. THe pod race grid (reinstated partly) with nonsensical additions that slows down the pace of the movie. YEt, Lucas did want that at first. He intended a a very long pod race but found out during editing that that was way too long. There were more sequences or additions that were dropped.
Lucas's line: "I may have gone too far this time." His explanations that he wanted to put too much in it, and experiment how many things he could tell at the same time (e.g. the four battles at the end). I'm sure he saw afterwards that it didn't work very well, his disappointment was subtly there.