Magatia Drops

Hmm... does this mean they took out the Helm INT 60%s and Chaos scrolls from the drop?

Why would they? Like Isaac said, everything was copypasta from the Magatia of another version. The drops weren't intentional - it is just a coincidence that the things we need are dropped in Magatia. That's all.

Let me try to explain this...

The drop tables are static. They always drop the same items. However, certain items only appear to you if you have X quest active/available/not available. This is why you can party with someone who has completed a quest and still loot the Quest Item drops off their kills. The Plant Fossils ALWAYS drop from Green mushrooms, even if you're level 200 and did the quest 3 years ago. If you kill a green mushroom, it will drop one. However, because you're not on that quest, you won't see them. This is especially obvious in Test Servers, because you'll frequently see "gaps" in the drops. For example:
X________MET_____Q
X and Q are quest items, while the M is Mesos, E is ETC, and T is an arbitrary rare drop (say a Top equip). Why do the X and Q items land so far apart from the other items? Because there are invisible items that you can't see that landed in between. Weird, I know, but that's how it works.

So, what was going on in Magatia is that those drops weren't programmed correctly to be associated with the quest; thus, they were dropping all the time. Now that those items are associated with a Quest on Nexon's servers, they're only seen when on that quest. On the other hand, there are numerous other worthless items that still didn't get a quest yet (99% caocao, baking powder of loneliness, etc.) and those are still dropping. When/If they implement the quest those are used for, you'll stop seeing them. That doesn't mean Nexon altered Magatia monsters' drops at all, it just means that those items are now "invisible" to you because you're not on the quest.

Short version: Nexon didn't change the drop tables so Chaos Scrolls probably do drop still.