I must admit that I wasn't thinking of running POD and the Ancients series together, just using "Twilight's Peak" as the Temple of the Nameless Keeper on Iroioah!
However there is a reference to running "Secrets of the Ancients" during Episode 10 of POD, although I think it was meant light heartedly! If you wanted to run POD with the "Ancients" campaign here is how I would do it.
1. Set Twighlight's Peak on Iroioah as the Temple of the Nameless Keeper.
2. Zoe could be set on one of the minor states of Inurin or even on Ergo!
3. Use Tobia for Regina at the Start of SOTA. Tobia and Usher subsectors have several worlds that could be Alell (New), Bougene (Aldaya), Pixie (Imisaa or Ardasil), Becks World (Khaliki) as well as the necessary worlds of MOTA. Vanejen could be up in Gazulin subsector, which might make running "The Demons Eye" easier with a Jump 6 ship!
4. 40th Squadron could be played by Zhuekvi the Corsair, with Aethgor's Palace being Zhuekvi's base on an asteroid in Exe!
5. I would suggest using Tktk for Andor. Naval Adventure 3 (Fire on the Sindalian Main) mentions the fact that the ISS are planning to Interdict Tktk because of the Chirper population. Instead the Navy has already done it. Alternatively move Villane and Browne one hex spinward and replace them with Andor & Candory.
6 Braudel can stay exactly where it is!