Star Wars WI: Separatist Alliance ISOT to the Original Trilogy

Another war is inevitable, but I'm unsure whether the CIS and Rebels would be at odds to the point of actually fighting one another (though they still wouldn't see eye-to-eye, mind you).

Once the Separatists get their bearings together and realize what just happened, Dooku definitely won't subordinate himself to his former master, now the supremely tyrannical Galactic Emperor who has since replaced him with a new apprentice (I can already imagine how a confrontation between Vader and either the Count or Grievous would play out). Seeing the iron-fisted empire that Sidious has created and that their previous selves must've..."disappeared" in order to make it all happen--not to mention knowing how horrified the Confederate people would be to learn that this time period's reigning government makes the hated Republic look positively benevolent--the Separatist leadership will have no choice but to oppose the Empire. That, of course, will trigger another galaxy-wide war.

Though Dooku & Company no longer answer to Sidious (because they're at war with him now) and thus have the freedom to govern the Confederacy on their own (i.e. building more and more droids without being held back by some higher authority), the Confederacy's also two decades behind in terms of technology and up-to-speediness with the era they now find themselves in. However, if they get their hands on uptimer technology, successfully reverse-engineer it and begin mass-production fast enough to sustain another war effort, the Separatists might just have a shot at survival for the time being.

But then there's also the Death Star, which the Empire can use to wipe out whole planets in one blast. How will the newly-arrived CIS respond to this potentially catastrophic development? Even if they deign to build other Death Star equivalents themselves, they'll take years and a colossal share of Separatist industry to complete before they're ready for serious action. Perhaps they'll rely on the Rebels to destroy the battle-station like IOTL--maybe even send a fleet or two to help them do it.

had the Jedi only been *defeated* in ROTS and not destroyed, I could see them making an alliance with the CIS against the cyborg and that walking corpse he calls master.

Nice map, but a little bit to small, so here is a bigger version of it:



Also a second map i found of the Clone Wars:

Would it not bee called the CIS-Imperial War.

strip Palpy of his force powers at the same time as the ISOT?

In addition, Palps would still have an Imperial war machine that remained loyal to him and imposed his will across the Galaxy, even without his powers as a trump card to keep the likes of Vader in check. That said, I think he'd find himself in the presence of his Force-using disciples a great deal less often due to concern that they might use his newfound inability to defend himself against him when no one's looking.

Honestly, I think that it'd be easier for us to discuss the scenario if no one lost their powers in the ISOT and every player in the galactic game focused on the renewed war with the long thought vanquished CIS. And given how iron-fisted the Empire is compared to its Republican predecessor, something tells me that the resulting conflict would be much more brutal than the Clone Wars was.