Hi there!
The interruption timer is an invisible mechanic that starts right after the Grand Toy Maker leaves the room during the Enpointe encounter. Every five minutes, it will trigger an interruption. However, the timer stops temporarily during any minigame or shadow sequence (the section right after the minigame with the spotlight). We would recommend to leave the game idle (not paused).
We’ll be adding this information to the guide as well - we sincerely apologize for the inconvenience! If you keep experiencing these problems, let us know, and we’ll contact our coding team!