Hello, we are not sure if we have messed up the gameplay, I hope you can see if that's true or can help if so:
In Episode 2, we completed part of a quest before we actually triggered the event that gives us the quest, and now it won't complete.
It is in the "Flying L" where we need to move 5 crates of Rose's. We moved one of them before we got the balloons from her, because we got a homing balloon from belowdecks.
When we actually got the quest, the task said 0/5 crates moved. We moved the 4 crates we could find (including the Aether injector thing) and are pretty certain that is all of them...