Ahh... So the story got cancelled and they hacked together a rushed ending.
The aliens and founders inheritance had been foreshadowed for a bit, so that's fine, but the jump cut to after "beating the game" but still having stuff to do and going to space...? Yeah, not following.
Glad to see the Yuri(?) so ship was chosen, but weren't they still holos? How'd a Holo get pregnant? Or is the implication that they all got their real bodies back and the alien tech make them physically into their avatars?
It's a shame, the story and characters were decent, but a lot of holes throughout and a rushed ending kinda ruin it.