I bring in enough stuff to make 300 flobbits, I have to click on info button then the accept button, repeat 300 times, and also wait for the little delay after the accept button.

I suggest a qty field next to the accept button, run the mission that many times or until until the first failure.

I don't disagree with this concept, however, I do feel that is the wrong place to implement it. Ideally this should be done from within the mission.

It's also my understanding that Incarnate would like to eventually implement a proper manufacturing interface, and not continue to do manufacturing through missions.

+1... but this really only applies to trident builders. And the devs like the grind involved, so I wouldn't be surprised if this was considered a feature of said grind.

Manufacture from stock was a big improvement, but manufacture n items as part of an overall polishing of the interface would be useful.