There are a few things that have bothered me throughout the Elemental series, and it would be nice if they were fixed:

In your city's build queue, it is very difficult to reorder production.  If you suddenly discover a great place to send a pioneer, but your city has 10 items in line, it is nearly impossible to move the pioneer up to the front.  The drag and drop is finicky and cumbersome, and will only work within each 'page'.  What I mean by this is that the first 5 (or 6?) items are displayed, and then you click the arrow on the right, and see the next 5, etc.  If the pioneer appears as the first item on 'page 2', then it is possible to move it all the way to the front.  If there is anything after it, all you can do is move it to the front of page 2, and then go back after something gets built, moving it to page 1.  Very frustrating!

Another build queue problem is with resources vs. structures.  Lets say I found my first city near a shard.  I decide I want that mana early, so I put it as item 2 or 3, after maybe a pioneer and a logging camp.  I have to select that on the map.  Not a big deal.  Then I go back into the queue, and dump everything else in.  Often, when I check back, the game has decided to move the shrine, or clay pit, or whatever all the way to the end of the queue.  Not what I wanted.

A third problem that has only shown up in this game is that clicking on parties will not always move the view to them.  It works maybe 50% of the time.  Always worked fine in the other games.