>>723617570
>>723617694
I've not played Part 3, so perhaps some facts get retconned or clarified that I wasn't clear on with just playing Part 2. However, here is what I understand happened:
Ilias from baseline MGQ basically broke the multiverse thanks to her constantly rewinding time to keep Luka alive thru his adventure. When Luka finally shows up and killed MGQ Ilias, the energy fucks up the miltiverse. All the alternate universes, end up starting to break down as a result.
MGQP is the "main" alternate universe. That is, it's the first universe to spin off from the main MGQ. All the other universes are spinoffs from the MGQP universe. This is why everybody is fighting in the MGQP universe.
The MGQP Loli Ilias is the remains of the MGQ Ilias after she was killed. She stripped herself of her powers and lost part of her memories to escape to somewhere else to avoid being fully killed. It's why she's so depowered in MGQP. She's not related to the MGQP Ilias Proper at all, outside being the same character from another parallel universe. It's why Loli Ilias has memories of Luka and events from MGQ, but doesn't recognize Sonya and "misremembers" details about Luka's parents and so on. She's pointing out the inconsistencies between the parallel universes, even when that's not her intention.
Black Alice is the MGQ Black Alice. The scientists in MGQP turned on a machine that pulled her out of MGQ just as Luka was finishing her off. This gave Black Alice enough time to finish absorbing all the dark magic and holy magic, basically ascending her. The Black Alice ascension smashed an energy pillar thru heaven, striking a fatal blow to the MGQP Ilias Proper and corrupting her with chaos magic, while also sending heaven crashing down to the ground.