According to Moore, his BSG was a "reimagining", and by my understanding Kobol was the source of the human life that eventually populated the 12 Colonies. There's no mention made of BSG 1979 and BSG 2004 existing in the same reality. Even taking into account the cyclic model of the big bang.
This Star Trek movie, on the other hand, is technically a sequel to Nemesis. You just need to look at it 4-dimensionally. It's not a chronological sequel, it's a new kind of sequel which takes into account time travel.
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