Kylo should have been in some “different” organization to start this trilogy, not just Empire 2.
This is true. If anything, I don’t give TLJ guff for throwing out ideas TFA set up. I’d more readily give TFA guff for setting them up in the first place since they weren’t all that great anyway.
Your film will not be made stronger if it torpedoes the foundation it is supposed to be building on. Even if the foundation is flawed.
But it doesn’t. TFA is not the foundation. The OT is. TLJ does not torpedo the OT.
For TLJ to take a turn different than the TFA suggested is not torpedoing the foundation of the story.