I'll just go over all of the points in the order they've come up in this thread.
An option to tag/mark items as "junk" for later quick/one-click sale should be added
I don't feel strongly about this one, since you can just use bags anyways, but adding it couldn't possibly detract from anyones experience so there's no reason not to add this.
Left-clicking (rather than left-clicking-and-holding/dragging) on an item within the inventory menu should allow you to pick it up
Very important, and it's been added! So that's progress.
A key ring (functioning as an "openable" container) to automatically store all acquired keys should be added
This would only be confusing since there are multiple characters, and only the one with the key should be able to use it. Just find a bag and use it as your key ring.
All items of an identical type (except equipment) should stack with each other in the inventory and trading menus
The only reason not to do this is for inventory management, and the only management is your weight since your bag will extend infinitely. Definitely should be added.
After drinking from a container (bottle/cup/mug/flask/etc.), an empty container should generate in the player's inventory
Yes.
"ALT" should consistently highlight all items/containers within the player's sight range
Containers should not be highlighted. Items are understandable because they can blend with the ground, but containers should be something the player has to search the room for by running their mouse over things that seem interactable. It effectively replaces a 'search' mechanic (like in d&d) by making the player search for themselves, and I love it.
A "pause" function should be added
Yes.
Anti-theft toggle to prevent accidental stealing actions
Yes.
Link/unlink all nearby party members button
Like the junk marking, I don't think this is very important, but it couldn't possibly hurt.
Easier way to see the effects of buff/debuffs on non-party members
Visual clarity is always good.
I'm not sure I understand this one, could you explain what you mean?
And on a side note, never think that Larian or really any dev doesn't care about the community feedback. The reason devs ignore community suggestions is because the community doesn't agree on it whole sale, and it loses it's impact. It's important to comment on threads like this with whether you agree or not because it shows the devs it's more of a unanimous thing and not just a small part of the community rambling. (Although it would be better if everything were in one place, which is why I've put the good things you mentioned on my list.)