I don’t see why the Council should step in here. FESCo’s decision seems to be a reasonable compromise. The text in the Change proposal remains true for composed deliverables; it doesn’t have to apply to the entire package repository.
Besides, there’s nothing that says Changes are permanent and immutable. They’re just the opposite, in fact. So FESCo approved a Change and now they’re approving an amendment to how it’s implemented. That sounds like the process working as intended.