After going through the yellow door, you chose to ally with Tenmyouji and go through the blue door.
Take the lift up. Check the table next to the safe to get a binder that explains the PEC door lock.
Make a note of the symbols on the bench.
On the upper floor, open a locker and tap the protective suit to put them on.
Take the lift down. Tap the door of the chamber. Look at the diagram from the binder you found, and draw lines between the correct colors, making sure the lines don't touch or cross.
In the chamber, be sure not to touch the door across from the one you came in.
Find the bench, take the tablet off of it, and make a note of the positions of the numbers.
Go over to the console and take the key.
Now exit the chamber.
Get on the lift. To unlock the panel at the bottom, compare the symbols
and the numbers from the two benches. The correct combination is
Cylinder, Hourglass, Star, Star, Diamond.
You get the key that was in the locked case.
Use this key and the one from the chamber on the locked lockers downstairs. You get a child-sized hazmat suit and a picture.
Go upstairs and plug the tablet into the USB cable next to the stool.
Get Locked In
Now go back into the chamber downstairs. Tap the welded-shut door. Clover will get frustrated and leave, but then the room locks and depressurizes.
Tap the giant rabbit to make it pop. Take the small Zero Jr. doll that was inside.
Tap a metal plate on the wall next to the white cables. Take the yellow and purple laser emitters (there are two of each color).
On the left side, use the yellow emitters on the bottom and middle yellow cable ends. On the right side, put the purple emitters on the top and bottom purple cable ends. This powers up the console.
Go to the console and press the red button to depressurize the room.
Now tap the glass to talk to Clover. Tap the binder under the machine to get her to take it and show it to you. Then tap the door of the chamber and connect the colors from the picture that Clover showed you. The door will unlock.
Combine the Zero Jr. doll with the small hazmat suit.
Go upstairs and put the small suit on the stool.
Get the Secret File Password
Make a note of the color combination on the machine:
. Green, Magenta
.. Green, Magenta
... Cyan, Green, Magenta
Tap the tablet that you plugged into the USB cable next to the stool. To use the suit scanner, tap the digit segments on the bottom left. Each segment has a color associated with it. Tap the segments corresponding to the colors that were on the machine, and memorize which segments you touched. Each color group will form a digit. There are three digits in the code. The colors on the machine make the code 117. Enter that on the right side of the machine and tap Check. This gives you the blue password.
Get the Escape Password
Find the note in your archives with the color combinations:
. Cyan, Red, Blue, Yellow, Magenta, Black
.. Cyan, Green, Black, Blue, Yellow
... Cyan, Green, Black, Magenta, Yellow
Tap the tablet that you plugged into the USB cable next to the stool. To use the suit scanner, tap the digit segments on the bottom left. Each segment has a color associated with it. Tap the segments corresponding to the colors from the note, and memorize which segments you touched. Each color group will form a digit. There are three digits in the code. The colors in the note make the code 623. Enter that on the right side of the machine and tap Check. This gives you the green password.