I think this all stems back to Rick Rubin's criticism that U2 don't write songs that can be played on an acoustic guitar or a piano, they rely more on soundscapes and effects. I really think that fucked with Bono and Edge's ego a little bit. Rubin was never the right fit for U2.... he works well with artists who already have demos recorded, and then helps them turn these rough drafts into full songs.
I really don't prefer acoustic versions of any U2 song. It doesn't play to their strengths as a band. Part of what makes me like a song like Stay, SATS or Stuck are what is happening sonically in the recordings. When you strip all that away to just an acoustic guitar, it just feels so empty to me. Whereas now they seem to think it's only a good song if you can play it on an acoustic guitar.