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When I click without any modifiers, I get "No modifiers pressed". 

When I click with Cmd, I get "Command key was pressed"

When I click with Ctl, I get a pop-up menu like this: 

-- So when Control is held down, no tags can be selected at all, is that correct?

That's right. 

-- If you select a tag, without control held, and click a different one with it held, does the first one become deselected, or does nothing happen? 

The first tag becomes deselected. 

-- Does Deepdwn stay focused when you do?

Yes, you mean that the window doesn't change to another application, right? 

-- If you click a selected tag while control is held, what happens?

Nothing. 

-- Do you have any other apps that might be interfering with Ctrl+click?

Not that I am aware of. Is there a way to check?

-- Are you using an external keyboard?

No.

-- Can you tell me what you see when you click the button here with Control held? With Command?

https://cdpn.io/billiam/debug/bGoaGJw/LDAmdnYmeyxr

Unfortunately, the link seems to have expired. It says "This debug view expired."

On MacOS 1Monterey 12.01 using v.0.30.0 and v.0.31.0, holding control and clicking on tags doesn't seem to allow selection of any tags. I tried Cmd too and that allows selection of single tags (like just clicking without any modifier key), but not multiple tags.