I agree with this. It needs a setting to shut off the queue. So far I find I'm spending more time fighting with the construction orders than doing anything else. It would be ok in the later game to turn it on, but really at the beginning this is just getting on my nerves telling it not to make things I don't require right now. Its not so great to remember to shut it off individually for each base. It needs a general on and general off switch.
This is a new game post patch so its not getting version confused. Its doing it with any starbase that is possible to upgrade, but the upgrades are less of a priority than other issues. I don't want to have to keep telling it to stop or rearrange the queue to my liking every other turn.