AR Starter Colonies
Starter colonies for AR races will not contribute excess resources to research, unless the build queue is cleared first (using the clear button) or the hull design changed / upgraded. This is due to the "build Starter Colony" order invisibly blocks the end of the queue despite the fact that it has already been completed.
^ I can't reproduce this. At least, looking at the queue block for the new colony, there's no production queue orders. And a clear order doesn't create a change queue block when the queue appears empty.