Ideally, these NPCs would all have real names, I've just given them simple ones for easy writing.
Floor 1 Quests
The First Floor
Task: Save the scientists on the first floor of the Laboratory.
Objective: Complete all other Floor 1 Quests.
Reward: 5m Base and Job EXP, choice of one of the following:
Rekenber Muffler [0] - 10% Reduction from Demihuman, 3 Defense
Rekenber Boots [0] - +7% Max HP and SP, 3 Defense
Help [Scientist 1]
This Scientist is positioned right inside the entrance to the dungeon.
Task: In order to assist in the rescue efforts, he requests that the players scout out the first floor of the laboratory and help thin the number of Removers.
Objective: Kill 100 Elite Removers.
Reward: 1m Base and Job EXP
Help [Scientist 2]
This Scientist is found hiding under one of the many beds scattered about the Laboratory. He's too scared to move from his spot due to an encounter with the Ghosts roaming the Laboratory.
Task 1: The player needs to prove to the Scientist that they can safely escort him out of the laboratory. To prove their ability, they need to show that the ghosts aren't as large of a threat as he thinks they are.
Objective 1: Bring 5 Aged Handcuffs and 5 Aged Research Charts to him.
Task 2: Seeing that the player is capable of dealing with the ghosts, he asks the player to go retrieve some of his work data, as he is unwilling to leave the laboratory without it.
Objective 3: Retrieve the Research Notes, Blood Sample, and Potted Plant scattered about the Laboratory.
Reward: 1m Base and Job EXP
Help [Scientist 3]
This Scientist is found at the door to the second floor of the Laboratory. Knowing there are others trapped further in, he is trying to repair the damaged door so that they can escape. Seeing the players are aiding in the rescue efforts, he asks them to assist in his repairs.
Task 1: The Scientist asks the players to turn on the Emergency Power Generator for the door.
Objective 1: Find and activate the Emergency Power Generator.
Task 2: Next, he asks the players to help him find some parts to help repair the door.
Objective 2: Retrieve 30 High Quality Iron Plates and 5 Aged Research Charts.
Task 3: Finally, he needs an ID Card to unlock the now-functioning door. Since he dropped his, he needs the players to go find an ID Card somewhere in the Laboratory.
Objective 3: Search the bodies of fallen scientists within the Laboratory for an ID Card.
Reward: 1m Base and Job EXP, Access to Floor 2.
Floor 2 Quests:
The Second Floor
Task: Save the scientists trapped in the Second Floor of the Laboratory.
Objective: Complete the quests Help Scientist 4 and Help Scientist 5
Reward: 5m Base and Job EXP, Choice of one of the following items:
Rekenber Suit [0]: 500 HP, 100 SP, 6 Defense
Rekenber Shield: 15% Reduction from Demihumans, 4 Defense
Help [Scientist 4]
This scientist is in the bottom right corner of the second floor. He is searching for an alternate way to escape the laboratory, specifically through the sewer system. He asks the players to repel the monsters to buy him time to search.
Task 1: Reduce the number of Enraged Spirits in the Laboratory's Second Floor.
Objective: Kill 20 of each type of Enraged Spirit.
Task 2: The scientist found the way out, but he needs tools to make his way out.
Objective 2: Find the Power Tools, Portable Power Supply, and Spare Cables scattered about the Laboratory's Second Floor.
Reward: 1.5m Base and Job EXP
Help [Scientist 5]
This Scientist is trapped in one of the Prison Cells at the top left corner of the map. He appreciates the player's help, but requests that they check up on the others locked up in the Prison Area.
Task 1: Investigate the Prison Area.
Objective 1: Reach the top right corner of the rightmost Prison Wing (there will be a clickable NPC at the end)
Task 2: Having seen no one in the prison wing, the scientist directs the player to the holding area by the test room.
Objective 3: Inspect the area in the Prisons near the testing room.
Task 3: Having seen no one there either, the scientist finally asks the player to disable the device in the Testing Room, in hopes it will calm the spirits that are attacking the Laboratory.
Objective 3: Head to the testing room and deactivate Testing Device. Defeat the enemy that appears (Enraged Gemini-S58)
Reward: 1.5m Base and Job EXP
Floor 3 Quests:
The Third Floor
This is the only quest for the third floor. There is one scientist, just outside the portal to Level 3 (so he's on floor 2) that will give the quest.
If the player has not finished all of the other quests in the dungeon, he will ask them to go back and help the other scientists. Once all other quests have been completed, he will give them the third floor quest.
Task: Venture into the third floor, and defeat the Vengeful Spirits to slow down the assault on the Laboratory.
Objective: Kill 1 Vengeful Spirit of each type.
Reward: 5m Base and Job EXP, plus the BIG item reward. You could do one of the cards of the dungeon by free choice, or some custom item/headgear, or whatever you think is appropriate.