In Hellions #4 the Goblin Queen was killed, however, the resurrection protocols did not apply to her because she was a clone of Jean Grey. Why did the protocols not apply to her but were applied to other clones like the Stepford cuckoos? Not to mention the Von Strucker twins have shown up on Krakoa after they've been cloned as well. The invitation to Krakoa was extended to the Omega Clan but not Madelyne despite all being clones.
Does the quiet council pick and choose which clones they resurrect?
In my opinion, I think that clones should be applied to the resurrection process, they are their own person and have their own way of thinking. If Genesis (clone of Apocalypse) were to be killed, would he be resurrected?
Mutant Clones:
Madelyne Pryor (Goblin Queen)
The Omega Clan (Omega Red, Omega White, Omega Black)
Evan Sabahnur (Genesis)
Reignfire
Lady Fantomex
Dark Fantomex
Joseph
Xraven
The Stepford Cuckoos
Laura Kinney (Wolverine)
Gabby Kinney (Scout)
Bellona
Zelda
Unnamed X-23 clones
Stryfe
Adriana Soria (Princess)
X-Beast
Henry McCoy (Sinister Clone)
Varkis
Shogun
James Howlett (Sinister Clone)
Kouen
Cortex (Madrox Dupe)
John Maddox (Madrox Dupe)
Kurt Wagner (Sinister Clone)
Namorita Prentiss
Ororo Munroe (Sinister Clone)
Revenant Storm
Robert Drake (Sinister Clone)
Scott Summers (Inhuman Clone)
Warren Worthington III (Clone)
Death-Flight
Alice hayes (Clone)
N2

How would alternate reality duplicates be treated?
Vampire Strom was killed on Earth-616 so will she be resurrected? X-Man is another reality duplicate and Blink has a duplicate running around as well.