Yes, I also mentioned this in my update to the "Beta UI Wishlist" thread as of 1.0.59 - please make keys and quest objects within containers in player inventory "recognized" by the game when needed.

Also, items within containers should automatically stack with newly acquired identical items. For example, I like to keep all my ingredients in one container to reduce clutter in the rest of the inventory, but currently I have to keep manually moving newly acquired ingredients from the main inventory into the ingredient container. Kind of a pain. (And I suppose if you have stacks of the same item in more than one container for some reason, the game should just stack the newly acquired item in the container that already contains more of that item.)

Thanks!