-Select a city from the city list, then click on the ground. It wont deselect. Click on the city on the map, then click on the ground, it will deselect.

-Set your sov to guard and deselect them. Select your sov from the unit list and click to move somewhere. They wont move, they are still guarding. Select your sov from the map, this un-guards them and then they will move where you click.

For whatever reason clicking something on the list is not the same as clicking on it on the map, and it causes at least these two issues I described.