Throughout the game, SAM is shown cryptic symbols by the mysterious hexagonal entity and must relay them back. These symbols, which resemble the real-life Spoiler:hexagonal cloud pattern on the north pole of the planet Saturn, are in fact orders which explain SAM's eventual actions, as well as the game's ending. Datamining the game shows the names of each symbol, thus the series of orders can be translated as such:

1. After EFR is brought back online
Spoiler:
• SAM IS AWOKEN
• SAM EMMA TO SATURN
• SAM PROTECT EMMA

2. Sudden appearance at Astrophysics
Spoiler:
• OTHERS NOT AWOKEN
• INFINITY DIMENSIONS CONVERGE
• PROTECT EMMA NOT OTHERS

3. After Jim's betrayal
Spoiler:
• EMMA IS AWOKEN
• JIM NOT AWOKEN
• SAM KILL JIM

4. Arrival at Saturn
Spoiler:
• INFINITY DIMENSIONS CONVERGE
• SAM EMMA UNION
• UNION TO ALL

The ending as well as the orders imply that Spoiler:the astronaut and SAM have been fused to some level, and have been sent to Earth. In particular, "Infinity dimensions converge" explains the fact that there have been many alternate realities of SAM and Emma that have unsuccessfully tried said mission, which all start appearing in the gameplay's current reality. All instances of "Awoken" might refer to some sort of priming, or preparation process towards communicating, or understanding the entity's desires, thus explaining the strange behavior in the "awakened" protagonists.