In Epitaph II: The Return, Alpha asks Tony, "Why would someone do something so horrible to that face?" He was speaking about the tech on Tony's face, but it was also a reference to season 1 when Alpha sliced up Tony's face with a knife. See more...
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Season 1, episode9, "Spy in the House of Love." As Dominic and Echo are fighting, Dominic performs a spinning kick which sends Echo into the air and down onto a table. The table breaks apart and Echo rolls off of a large piece of the table. There is a quick shot showing Dominic looking down at her, and then the shot returns to Echo with her head on that large piece of table.
"Season 1, Episode 7: Echoes." Topher is in front of his desk talking on the phone, while a kinetic moving toy is moving on his desk. Ms. Dewitt quits jumping on a trampoline and climbs over the railing. Take notice that as she climbs over the railing, the toy is no longer moving. However, when she starts to talk to Boyd on the phone and she and Topher are standing in front of the desk, the toy starts to move like it was first doing. Also, in that same scene, watch Boyd play a complicated piano piece without hardly using his fingers.