(Game Trope) The hub area gets suddenly attacked
Mass Effect 2 - The Normandy, where you spend the most time in between missions, talking to teammates or levelling up the ship against the reapers, is eventually attacked when your main squad is sent out - leaving the ship defenceless, the crew kidnapped and leading to the eventual “suicide mission” to get them back.
Dishonoured - The Hound Pits Pub - After you are betrayed - the pub is attacked.
Mouse PI for Hire - After completing the majority of the story - your town is attacked by corrupt cops.
The Walking Dead (Telltale) - Happens multiple times: The Pharmacy in Episode One, Katjaa suddenly being attacked, and the St John Dairy in episode 2, the main base is attacked by bandits in episode 3, Crawford - a community of survivors, is wiped out, with you and your companions trapped inside, the mansion in episode 5 is also raided by walkers in a final stand off.