### Godot version

Master (0ddd9c3e8f9088fa139e25b2903289d727073e12)

### System information

PopOS 22.04 - Intel integrated graphics - all backends

### Issue description

When there are popup windows in the editor, I cannot click on the "Confirm"/"Cancel" type buttons at the button. 

I have the issue both in the project manager (importing projects I can click on files etc. but cannot click "open") and when running the editor (cannot click "Save&Quit" etc.)

Sometimes the editor correctly highlights the buttons and I can use the arrow keys to navigate the buttons and "enter" to confirm my selection.

_I can navigate the editor closing dialogue with tab/arrow keys_
![Screenshot from 2023-01-16 14-24-06](https://user-images.githubusercontent.com/16521339/212774269-d784ea5e-5921-4460-9124-48978939c8e7.png)

_I can't navigate the project import dialogue with tab/arrow keys_
![Screenshot from 2023-01-16 14-29-00](https://user-images.githubusercontent.com/16521339/212774683-0a80795a-eed4-4e65-b2ca-3562c25d71fd.png)


### Steps to reproduce

Run the editor

### Minimal reproduction project

Reproducible in the project manager
}
					Point2i new_center = pos;
					pos = last_mouse_pos + xi.relative_motion;
					center = new_center;
					do_mouse_warp = focused; 
				}
				if (!last_mouse_pos_valid) {
					last_mouse_pos = pos;
					last_mouse_pos_valid = true;
				}
				
				
				
				
				
				
				Point2i rel;
				
				if (mouse_mode == MOUSE_MODE_CAPTURED) {
					rel = xi.relative_motion;
				} else {
					rel = pos - last_mouse_pos;
				}
				
				xi.relative_motion.x = 0;
				xi.relative_motion.y = 0;
				if (mouse_mode == MOUSE_MODE_CAPTURED) {
					pos = Point2i(windows[focused_window_id].size.width / 2, windows[focused_window_id].size.height / 2);
				}
				Ref<InputEventMouseMotion> mm;