When Elliot pleads guilty in front of the TV, to the judge and his father pops up yelling, "what are you doing", following that scene his father returns to the judge and yells, at that exact moment you can see the judges right eye falter -out of reflex. Since his father is just in Elliot's mind the judge should have never faltered.
Elliot claims that "init 5 is supposed to be simple, a fresh start, restored connections" however, most Linux OS' start the networking on init 2, technically, restored connections.
At the end while listening to the conversation, the subtitles in English during the Chinese conversation reads "You have to be extra careful" while the transcript on the laptop read "You have to be careful".
In season 1, Elliot successfully blackmails Fernando Vera after breaking him out of prison, by explaining he had a program written up that he needs to manually disable every day. Otherwise, all the dirt he has on Vera will be leaked. Here, Elliot goes to prison for just under 3 months. He had no way of manually disabling the software from behind bars.