I pointed this out to Mako, who commented that "the nyt style guide is a formidable adversary." (Observe the downcasing of nyt.)
While finally getting to the Sunday magazine from the same issue this morning over breakfast in my hotel, I stumbled on this sentence in the article about George Lucas:
They'll be like the experimental movies Lucas made in the 1960s, around the time he was at U.S.C. film school, when he recorded clouds moving over the desert and made a movie based on an E. E. Cummings poem.
"E. E. Cummings"! I guess they really don't make exceptions for anyone. Well, except for the fact that uppercase might be the correct spelling for him. Somehow, I don't think the NYT cares.
And yes, the NYT has also occasionally even capitalized the name of the poem.