In “The Jedi Who Knew Too Much” when Ahsoka is leaving and Anakin says “I know what it’s like to want to leave the order.” Ahsoka responds “I know you do.” Which I always understood as her hinting that she knows why he would want to leave, hence “Unexpected Company” showing her working it out.
As for where to place it in the proposed S03E0, I like the order you’ve listed, and I honestly don’t know where it would fit. 😕