You're right, and I wrote that in haste, so I've taken out "It should really be lower than that because the article is completely wrong" and replaced it with "It should probably be lower".
Edit: I took a look at your list and don't see any pattern in those stories. Some belong on HN and indeed got a lot of time on the front page. Others clearly don't belong on HN. In a few cases moderators intervened to penalize the story or turn penalties off, but in a solid majority moderators didn't intervene at all. In a few cases a bunch of points were dropped by the anti-voting ring software so the 'real' score wasn't as high as it seemed.
To me all this shows, and the reason I described it as 'completely wrong', is that you can't reconstruct what's going on from timestamps, point totals, and story rank. There's simply too much data that isn't public. I know that's frustrating to the large section of HN's userbase who love to know what's going on and figure things out. But I don't believe making it all public would be helpful, so here's the balance we've arrived at over the years: we make public the the principles of how the system works, including moderator intervention, and we answer specific questions about specific cases.