Yes, the script of Cross has many contradictions within in, and interpretation is always subjective when the script is ambiguous.
For example, the above quote (thanks Vehek, you saved me the trouble
) could be interpreted two ways:
1) The Dragon Gods existed in both dimensions (despite being in part trans-dimensional entities) until 1010 AD when FATE only then decide to destroy some in both worlds.
-or-
2) The Dragon Gods existed for a short while in both dimensions after the creation of Home World in 1010 AD before FATE decided to destroy some in both worlds.
Both are perfectly reasonable interpretations. Personally, the second one was how I interpreted it when I first read that quote. But that begs the question - how could FATE annihilate the Dragons of Home World
when it no longer had influence over Home World?
The script says again and again that the dimensional split happened in 1010 AD. A shared past timeline with a "Y" shaped model for the dimensional split neatly explains why the Dead Sea only appears in 1010 AD and not prior to that in Home World. It explains why Miguel remembered living in Chronopolis up until that point. But then the script also says that FATE has always been observing both worlds. It is endlessly confusing, and my two cents is that we should side with the model of events that has the most consistency.