Hmmmm, I didn't actually consider that we would be "waking" the Remnant up. But Interesting twist.
I more thought it would be about the pursuit of the technology could cause us to succumb to whatever it was that wiped the remnant out.
My primary reasoning on why that probably wont be the story they choose is twofold: It would be a recycling of the dark energy plot, at least the theme of it, and a long dead race that no longer exists is basically the Protheans 2.0.
Additionally, there will need to be some sort of antagonist species beyond just typical mooks like the Khet probably will be. My guess is, the Remnant will be that antagonist species. And one of the very first leaks described concept art for a hyperadvanced, synthetic looking species that was truly alien in appearance. That was probably an early Remnant concept art, I would guess.
I imagine the story will go like this: The ark probably gets to Andromeda via the discovery of Remnant tech in the Milky Way - be it wormhole tech, whatever doesn't matter. They probably knew of this for years, but did not figure out how to work it until tue Reaper War. Convenient, yes, but probably necessary to link the two stories. The species of the Milky Way then assume that the Remnant were benevolent, and placed this technology in the Milky Way to allow species of the Milky Way a way to safely escape the harvest.
Once in Andromeda, they discover more Remnant ruins, and run into conflict with native species that want the same tech. That will be a major part of the game. But with time, as the main characters learn more about the Remnant, they discover that they have not vanished...but have been slumbering, awaiting.
Would be my guess. Cliche Sci FI story - right up Bioware's alley. Just like moving the setting to Andromeda in the first place, I would find this to be very predictable.