I didn't do a fresh install of the game but updated it so I tried to do a clean install this time which didn't seem to work either.
The save from when I last played the game was located in the player's room, at the menu when it asks you where you want to go.
It seems that when you press the "back" button and click the computer in your room, a bug occurs where the ren'py prompts just disappear. It doesn't seem to happen when you do anything else.
So I worked out the problem, I just wanted to report the bug.