I really like the part in the movie verse in which Thomas was the “source” for the Right Arm. Spy!Thomas is such an interesting concept to explore.
There is no doubt that the time Thomas worked for WCKD had a profound impact on the present and future. But once he ends up in the maze, regardless of whether he gets his memories back, that part of him becomes the past he determines to break from.
Whereas in AUs where Thomas remains in WCKD as a spy for the Right Arm, his cover as a WCKD member is still an ongoing part of his life. His mentality and the way other people perceive him would be very different.
For Thomas, with his memories intact, he would be even more guilt-ridden than in the canon. It doesn’t help when he has to live a double life constantly. People close to him get a facade he puts on. The people he fights for is an elusive radio wave connection(most sees him as an enemy). This mismatch means he has no one to confide in. Life would be far less complicated if he had entered the maze instead.
For the Gladers, there is a legend they admire: a person who risks their own life to provide the Right Arm crucial intelligence, who freed them from the maze. There is also a “WCKD’s favourite” whom they disdain, the person who built the maze that trapped them for years. However, little do they know those two polar opposites are the same person.
This situation won’t last forever. Perhaps there is a rescue mission; the Right Arm may be ready to take down WCKD; or his cover is blown up at a later time. It is when everyone gets to know who he truly is–in a different circumstance.











