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In the seventh mission of the game, there is an assassin talking to another about the basics of stealth. The assassin's dialogue is a direct reference to the tutorial from Thief: The Dark Project.
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In the H.Q. in one of the shops, on the second floor there is a large oval painted on the wall. On the outside of the same wall you can find a second oval. Reading a note near the first oval reveals a scientist wanted to use these to travel long distances, referencing the Portal series.

The note reads:
The "door to nowhere" has proven to be a safety hazard, but for me this project is an endless source of inspiration. With the proper application of energies, I believe I can transform the door frame into a window of sorts, one that will allow a traveler to cover the distance from my workshop to some distant, arbitrary point in a single step. Currently the step leads to a sheer drop, straight down into the courtyard, but in time it will bridge gaps that will boggle the mind. Such work is many years away, to be sure, but if I survive the plague I'm sure to succeed.
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The mission Lady Boyle's Last Party is loosely based off Edgar Allan Poe's story "The Masque of the Red Death".

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