Of course, the Enchantress hadn't been completely eliminated yet.
As long as her body was locked up in Space 2, however, she probably wouldn't be able to do anything big for the next three to five years at least.
Luke wouldn't give her that much time, in any case.
Now that such a big thing had happened, as long as he followed Flegg, he would be able to find Amanda Waller sooner or later.
Only by finding this woman would he be able to obtain the important body part of the Enchantress which she controlled — the heart, which contained part of the Enchantress's core energy.
If he couldn't find it, he would ask Amanda if she had any other parts of the witch. Until then, Luke really couldn't kill the Enchantress.
Otherwise, the other party would definitely be "reborn" and "come back to life."
In this regard, these secret organizations were absolutely useless.