This is an interesting topic, and I feel compelled to add my 2 cents.
I think the discussion regarding the political implications of and the personal motivations behind both the original and the remix is totally warranted given their backgrounds and the material in question.
I don't agree that the original is 'creepy', however. I think there's something very uplifting about it, though obviously not in a "Trance Nation: Euphoria" type way, but in a "the existence of a spiritual domain that transcends the physical, no matter how abhorrent" kind of way. Especially with the line "the mind and spirit remains invincible!" being followed by a drop of sorts. If anything, Villalobos' version is far creepier, like when echos the line 'when I see the towers fall' with a crumbling reverbed hit.
I think the critical difference in their tacklings of such loaded material however, is that the Shackleton version has this element of catharsis that presumably comes from the music being so deeply interwoven with the fabric of poem... the 2 forms of expression combining in a synergistic fashion to create the overall mood of the piece. Whereas villalobos just takes the lyrical side, and turns it into one of his typical 4/4 minimal pieces, which leaves you in no-mans land regarding the possible interpretations of the poem.
Interestingly, I was at Fabric when it was played, and I don't believe anyone noticed the lyrics (I didn't even realise what it was until my friend pointed it out, and I was pretty familiar with the original by that point). It just had this 'simmering' effect on the dancefloor, where the overall temperature of the dance is kept, without either decreasing or increasing the heat, which has a unique effect in itself, especially when extended over a long period of time (which Villalbos is a master at).
I think the interesting thing (as with many dance tunes) will be when it becomes 'public property' of the dancers. When the tune no longer inspires a unique and fresh personal reaction, but when groups of people who have heard it out together many times, and have 'claimed it', by gradually (after a period of combined listens) developing a combined social, spiritual, emotional and physical response to it. So when it is played, it triggers this complex multi person dance routine of sorts. (I hope someone knows what I'm on about here, as I'm at a bit of a loss how best to describe it). With certain 'big' tunes (like say "In White Rooms"), the results of this gradual group co-ownership are (moderately) predictable. But with a tune dealing with the towers falling (even if it is from trans-physical point of view) the results will be interesting to say the least.