Example Org file:

* Parent :foo:bar:baz:
** Child :foo:bar:spam:

Invoking org-set-tags-command with point on Child prepopulates the
minibuffer prompt with only the tags :spam:

This is because org-get-tags doesn't distinguish between inherited only
tags and inherited tags which are also explicitly set on a heading, so
org-set-tags-command treats :foo:bar: as inherited only rather than also
set locally on the heading.

This is undesirable because having tags set directly on a heading has
different semantics even if they are also inherited (e.g., the TAGS
special property, or when headings will be refiled to a different
location later).

Attached patch.

>From 934d65537e46c68c10edbfa2d7140cebfe89d271 Mon Sep 17 00:00:00 2001
From: Allen Li <darkfel...@felesatra.moe>
Date: Tue, 18 Aug 2020 15:34:38 -0700
Subject: [PATCH] org.el: Don't exclude local tags that are also inherited

* lisp/org.el (org-set-tags-command): Don't exclude local tags even if inherited.
---
 lisp/org.el | 4 +---
 1 file changed, 1 insertion(+), 3 deletions(-)

diff --git a/lisp/org.el b/lisp/org.el
index fb95590fc..49d7d24f2 100644
--- a/lisp/org.el
+++ b/lisp/org.el
@@ -11880,9 +11880,7 @@ in Lisp code use `org-set-tags' instead."
 				  (org-global-tags-completion-table
 				   (org-agenda-files)))
 			     (or org-current-tag-alist (org-get-buffer-tags)))))
-	       (current-tags
-		(cl-remove-if (lambda (tag) (get-text-property 0 'inherited tag))
-			      all-tags))
+	       (current-tags (org-get-tags nil t))
 	       (inherited-tags
 		(cl-remove-if-not (lambda (tag) (get-text-property 0 'inherited tag))
 				  all-tags))
-- 
2.28.0

Emacs  : GNU Emacs 27.1 (build 1, x86_64-pc-linux-gnu, GTK+ Version 3.24.22)
 of 2020-08-11
Package: Org mode version 9.3.7 (9.3.7-18-g093b47-elpaplus @ 
/home/ionasal/.emacs.d/elpa/org-plus-contrib-20200810/)

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