That was my interpretation of the scene in which Thrawn looks at the map after it's been modified is that he knows. I guess it's now an issue of does he actually know which planet has been removed, or just that a planet has been.
I used to think earlier in the season that Kallus was going to serve the role of Thrawn's creepy bodyguard in the novels, but now I'm not so sure. Given that Thrawn knows Kallus is a traitor, Thrawn most certainly isn't going to lower his guard around him.
Yeah, none of that's canon anymore. Though they have kept the name Chimaera as Thrawn's flagship, which even got mentioned in dialogue in this episode. IIRC, they haven't yet mentioned who the captain of Chimaera is on the show, have they? Could be Pellaeon, though I doubt at this point they'll address it on the show anyway, especially since we already have plenty of authority figures on the Chimaera, Thrawn, Admiral Konstantine, Governor Pryce, and maybe Yularen, if he's sticking around. I'll be surprised if the name Pellaeon is nowhere to be found in the upcoming Thrawn novel, though.
According to
this site it is indeed Rukh.