I want to contribute! Here are somethings I notices and want to point out.
Ebonhawke – I think there was a skill in GW1 with the same name, which can also be a reference to Ebon Hawk, the ship from Knights of the Old Republic.
North Nolan hatchery in Diessa Plateau – Reference to voice actor Nolan North (who voices the human males).
There’s a section in the uncategorized fractal where lines of electricity rolls down a ramp. This always reminds me of rock band except instead of hitting every note, you’re supposed to dodge them.
When you activate the warrior elite skill rampage you gain a red aura – Dragonball Z Kaioken? This might be a stretch, but when you’re in this form you stop using your weapons and your attack include punching, kicking, throwing a boulder (energy ball) and launching your enemy. Too bad no teleporting behind your enemy though.
The asura gates that reaches the other major cities in Lion’s Arch looks like a hand from the map. Divinity’s Reach being the thumb.
The different dances for each race probably references something too.