Complex sentence: At one point Flowers was told that Brian Eno had passed over the chance to produce the album, a rejection that affected Brandon greatly, however when working with Eno for Wonderful Wonderful, Eno told him that he was never offered the project in the first place.
Split into simpler sentences: At one point Flowers was told that Brian Eno had passed over the chance to produce the album, a rejection that affected Brandon greatly. However when working with Eno for "Wonderful Wonderful", Eno told him that he was never offered the project in the first place.