org-element--cache: Added org-data parent to non-headline element

org-element--cache: Added org-data parent to non-headline element

[martyhiatt]

hi org-mode,

i'm encountering an error repeatedly in my work. (i know elisp but not org well, i also don't know how to report bugs, so apologies if i'm doing it wrong.

how i encounter it:

- working in an org file, i call clone-indirect-buffer-other-window.
- i narrow parent buffer to a subtree, and cloned buffer i open in another frame
- in cloned buffer, i move some headings or list items around, and at some point the org parsing breaks. so eg if i move a heading, it doesn't correctly calculate the end of the subtree but moves part of the next subtree with it (it splits it in the middle for example).

- i get an warning like so:

#+begin_example
⛔ Warning (org-element): org-element--cache: Added org-data parent to non-headline element: (item (:standard-properties [22226 22226 22232 22238 22238 0 (:tag) item element t (61 . 22226) nil nil nil #<buffer my-org-file.org> nil ((22225 0 "- " nil "[ ]" nil 22237) (22237 0 "- " nil "[X]" nil 22251) (22251 0 "- " nil "[ ]" nil 22273) (22273 0 "- " nil "[ ]" nil 22285) (22285 0 "- " nil "[ ]" nil 22317) (22317 0 "- " nil "[ ]" nil 22344) (22344 0 "- " nil "[X]" nil 22366)) (headline (:standard-properties [22195 22195 22221 22367 22367 0 (:title) nil element nil (61 . 22194) 22223 22367 1 #<buffer my-org-file.org> [org-element-deferred org-element--headline-deferred nil t] nil (org-data (:standard-properties [1 1 2 95144 95144 0 nil org-data nil t nil 4 95144 nil #<buffer my-org-file.org> [org-element-deferred org-element--get-global-node-properties nil t] nil nil] :path "/path/to/my-org-file.org" :fragile-cache nil))] :pre-blank 0 :raw-value [org-element-deferred org-element--headline-raw-value (0 0) nil] :title [org-element-deferred org-element-property-2 (:raw-value) nil] :level 0 :priority nil :tags nil :todo-keyword nil :todo-type nil :footnote-section-p [org-element-deferred org-element--headline-footnote-section-p nil nil] :archivedp [org-element-deferred org-element--headline-archivedp nil nil] :commentedp nil :fragile-cache nil))] :bullet "- " :checkbox off :counter nil :pre-blank 0 :tag nil))
If this warning appears regularly, please report the warning text to Org mode mailing list (M-x org-submit-bug-report).
#+end_example

- i think the actual parsing mess ups vary, sometimes the paragraph indent will be lost, or rich text markup doesn't work properly any more, but i figure they're all derivative of the same error.

- i have to restart the file to continue working.

- i tried it also in emacs -q, same file, same cloning/narrowing, and i got a different error:

#+begin_example
Warning (org-element-cache): org-element--cache: Org parser error in my-org-file.org<2>::2131. Resetting.
The error was: (wrong-type-argument integer-or-marker-p nil)
Backtrace:
nil
Please report this to Org mode mailing list (M-x org-submit-bug-report).
#+end_example

i'm running emacs 30.0.50, gtk, cairo, daemon mode.
i'm running org 9.7-pre, installed via straight/use-package

NB: when i run in emacs -q, it runs emacs built-in version, 9.6.9.
would it be helpful to try to reproduce with emacs -q plus my own org config (it's a lot)?

i'm currently not able to upgrade to next org version as i don't want my config to break while working on this project.

thanks,
marty

Re: org-element--cache: Added org-data parent to non-headline element

[Ihor Radchenko]

martyhiatt@riseup.net writes:

> i'm encountering an error repeatedly in my work. (i know elisp but not org well, i also don't know how to report bugs, so apologies if i'm doing it wrong.
>
> how i encounter it:
>
> - working in an org file, i call clone-indirect-buffer-other-window.
> - i narrow parent buffer to a subtree, and cloned buffer i open in another frame
> - in cloned buffer, i move some headings or list items around, and at some point the org parsing breaks. so eg if i move a heading, it doesn't correctly calculate the end of the subtree but moves part of the next subtree with it (it splits it in the middle for example).
>
> - i get an warning like so:
>
> #+begin_example
> ⛔ Warning (org-element): org-element--cache: Added org-data parent to
> non-headline element...

I have addressed some edge cases with indirect buffers on Org 9.7.
When you finish with urgent work, may your please try upgrading?

> ...
> i'm currently not able to upgrade to next org version as i don't want my config to break while working on this project.

Meanwhile, you can set `org-element-use-cache' to nil. This will disable
the cache and get rid of the error for the time being.

-- 
Ihor Radchenko // yantar92,
Org mode contributor,
Learn more about Org mode at <https://orgmode.org/>.
Support Org development at <https://liberapay.com/org-mode>,
or support my work at <https://liberapay.com/yantar92>

Re: org-element--cache: Added org-data parent to non-headline element

[Ihor Radchenko]

[ Adding Org mailing list back to CC. Please use Reply All to keep the
conversation public ]

martyhiatt@riseup.net writes:

> i can confirm i can still cause the problem having updated org.

That is to Org >=9.7.4, right?

> here's an example error, reproduced in the same way as the above:
>
> ⛔ Warning (org-element): org-element--cache: Org parser error in my-file.org<2>::22313. Resetting.
>   The error was: (wrong-type-argument integer-or-marker-p nil)
> ...

Ok.
May you then add the following to your config and share the diagnostics
next time the error comes out:

(setq org-element--cache-self-verify 'backtrace)

-- 
Ihor Radchenko // yantar92,
Org mode contributor,
Learn more about Org mode at <https://orgmode.org/>.
Support Org development at <https://liberapay.com/org-mode>,
or support my work at <https://liberapay.com/yantar92>

Re: org-element--cache: Added org-data parent to non-headline element

[martyhiatt]

On 7/17/24 16:56, Ihor Radchenko wrote:
> [ Adding Org mailing list back to CC. Please use Reply All to keep the
> conversation public ]

I think you actually wrote me privately, so reply all wasn't an option. am happy to now tho.

> 
> martyhiatt@riseup.net writes:
> 
>> i can confirm i can still cause the problem having updated org.
> 
> That is to Org >=9.7.4, right?

Yeah. org-version gives: "Org mode version 9.8-pre (release_9.7.6-86-g571f1c @ /path/to/.emacs.d/straight/build/org/)"
> 
>> here's an example error, reproduced in the same way as the above:
>>
>> ⛔ Warning (org-element): org-element--cache: Org parser error in my-file.org<2>::22313. Resetting.
>>    The error was: (wrong-type-argument integer-or-marker-p nil)
>> ...
> 
> Ok.
> May you then add the following to your config and share the diagnostics
> next time the error comes out:
> 
> (setq org-element--cache-self-verify 'backtrace)
> 

i have a backtrace from my file, but it contains information i don't want to post to a public mailing list (my essay/notes). i tried again in a partly lorem ipsum-ified file and received the backtrace below when moving todo items around.

is that of any help?

when playing around i noticed that the error only occurs when narrowing is in effect: i narrow in the main window then can cause the error in the secondary/cloned one.

marty


⛔ Warning (org-element): org-element--cache: (org-metadown) Cached element is incorrect in org-bug-file.org<2>. (Cache tic up to date: "no") Resetting.
If this warning appears regularly, please report the warning text to Org mode mailing list (M-x org-submit-bug-report).
The element is: "(headline (:standard-properties [779 779 nil nil 886 0 (:title) nil element t (23 . 779) nil nil 2 #<buffer org-bug-file.org> [org-element-deferred org-element--headline-deferred nil t] nil (headline (:standard-properties [3 3 20 2171 2171 0 ... first-section element t ... 22 2171 1 #<buffer org-bug-file.org> [org-element-deferred org-element--headline-deferred nil t] nil ...] :pre-blank 1 :raw-value [org-element-deferred org-element--headline-raw-value ... t] :title [org-element-deferred org-element-property-2 ... nil] :level 1 :priority nil :tags nil :todo-keyword nil :todo-type nil :footnote-section-p [org-element-deferred org-element--headline-footnote-section-p nil nil] :archivedp [org-element-deferred org-element--headline-archivedp nil nil] :commentedp nil :fragile-cache nil))] :pre-blank 0 :raw-value [org-element-deferred org-element--headline-parse-title (t) t] :title [org-element-deferred org-element--headline-parse-title (t) t] :level [org-element-deferred org-element--headline-parse-title (t) t] :priority [org-element-deferred org-element--headline-parse-title (t) t] :tags [org-element-deferred org-element--headline-parse-title (t) t] :todo-keyword [org-element-deferred org-element--headline-parse-title (t) t] :todo-type [org-element-deferred org-element--headline-parse-title (t) t] :footnote-section-p [org-element-deferred org-element--headline-parse-title (t) t] :archivedp [org-element-deferred org-element--headline-parse-title (t) t] :commentedp [org-element-deferred org-element--headline-parse-title (t) t]))"
  The real element is: "(headline (:standard-properties [778 778 nil nil 885 0 (:title) nil nil nil nil nil nil 2 #<buffer org-bug-file.org> [org-element-deferred org-element--headline-deferred nil t] nil [org-element-deferred org-element--headline-parent-deferred nil t]] :pre-blank 0 :raw-value [org-element-deferred org-element--headline-parse-title (t) t] :title [org-element-deferred org-element--headline-parse-title (t) t] :level [org-element-deferred org-element--headline-parse-title (t) t] :priority [org-element-deferred org-element--headline-parse-title (t) t] :tags [org-element-deferred org-element--headline-parse-title (t) t] :todo-keyword [org-element-deferred org-element--headline-parse-title (t) t] :todo-type [org-element-deferred org-element--headline-parse-title (t) t] :footnote-section-p [org-element-deferred org-element--headline-parse-title (t) t] :archivedp [org-element-deferred org-element--headline-parse-title (t) t] :commentedp [org-element-deferred org-element--headline-parse-title (t) t]))"
  Cache around :begin:
"(headline (:standard-properties [671 671 nil nil 779 1 (:title) nil element t (23 . 671) nil nil 2 #<buffer org-bug-file.org> [org-element-deferred org-element--headline-deferred nil t] nil (headline (:standard-properties [3 3 20 2171 2171 0 ... first-section element t ... 22 2171 1 #<buffer org-bug-file.org> [org-element-deferred org-element--headline-deferred nil t] nil ...] :pre-blank 1 :raw-value [org-element-deferred org-element--headline-raw-value ... t] :title [org-element-deferred org-element-property-2 ... nil] :level 1 :priority nil :tags nil :todo-keyword nil :todo-type nil :footnote-section-p [org-element-deferred org-element--headline-footnote-section-p nil nil] :archivedp [org-element-deferred org-element--headline-archivedp nil nil] :commentedp nil :fragile-cache nil))] :pre-blank 0 :raw-value [org-element-deferred org-element--headline-parse-title (t) t] :title [org-element-deferred org-element--headline-parse-title (t) t] :level [org-element-deferred org-element--headline-parse-title (t) t] :priority [org-element-deferred org-element--headline-parse-title (t) t] :tags [org-element-deferred org-element--headline-parse-title (t) t] :todo-keyword [org-element-deferred org-element--headline-parse-title (t) t] :todo-type [org-element-deferred org-element--headline-parse-title (t) t] :footnote-section-p [org-element-deferred org-element--headline-parse-title (t) t] :archivedp [org-element-deferred org-element--headline-parse-title (t) t] :commentedp [org-element-deferred org-element--headline-parse-title (t) t]))"
"(headline (:standard-properties [671 671 nil nil 779 1 (:title) nil element t (23 . 671) nil nil 2 #<buffer org-bug-file.org> [org-element-deferred org-element--headline-deferred nil t] nil (headline (:standard-properties [3 3 20 2171 2171 0 ... first-section element t ... 22 2171 1 #<buffer org-bug-file.org> [org-element-deferred org-element--headline-deferred nil t] nil ...] :pre-blank 1 :raw-value [org-element-deferred org-element--headline-raw-value ... t] :title [org-element-deferred org-element-property-2 ... nil] :level 1 :priority nil :tags nil :todo-keyword nil :todo-type nil :footnote-section-p [org-element-deferred org-element--headline-footnote-section-p nil nil] :archivedp [org-element-deferred org-element--headline-archivedp nil nil] :commentedp nil :fragile-cache nil))] :pre-blank 0 :raw-value [org-element-deferred org-element--headline-parse-title (t) t] :title [org-element-deferred org-element--headline-parse-title (t) t] :level [org-element-deferred org-element--headline-parse-title (t) t] :priority [org-element-deferred org-element--headline-parse-title (t) t] :tags [org-element-deferred org-element--headline-parse-title (t) t] :todo-keyword [org-element-deferred org-element--headline-parse-title (t) t] :todo-type [org-element-deferred org-element--headline-parse-title (t) t] :footnote-section-p [org-element-deferred org-element--headline-parse-title (t) t] :archivedp [org-element-deferred org-element--headline-parse-title (t) t] :commentedp [org-element-deferred org-element--headline-parse-title (t) t]))"
"(headline (:standard-properties [779 779 nil nil 886 0 (:title) nil element t (23 . 779) nil nil 2 #<buffer org-bug-file.org> [org-element-deferred org-element--headline-deferred nil t] nil (headline (:standard-properties [3 3 20 2171 2171 0 ... first-section element t ... 22 2171 1 #<buffer org-bug-file.org> [org-element-deferred org-element--headline-deferred nil t] nil ...] :pre-blank 1 :raw-value [org-element-deferred org-element--headline-raw-value ... t] :title [org-element-deferred org-element-property-2 ... nil] :level 1 :priority nil :tags nil :todo-keyword nil :todo-type nil :footnote-section-p [org-element-deferred org-element--headline-footnote-section-p nil nil] :archivedp [org-element-deferred org-element--headline-archivedp nil nil] :commentedp nil :fragile-cache nil))] :pre-blank 0 :raw-value [org-element-deferred org-element--headline-parse-title (t) t] :title [org-element-deferred org-element--headline-parse-title (t) t] :level [org-element-deferred org-element--headline-parse-title (t) t] :priority [org-element-deferred org-element--headline-parse-title (t) t] :tags [org-element-deferred org-element--headline-parse-title (t) t] :todo-keyword [org-element-deferred org-element--headline-parse-title (t) t] :todo-type [org-element-deferred org-element--headline-parse-title (t) t] :footnote-section-p [org-element-deferred org-element--headline-parse-title (t) t] :archivedp [org-element-deferred org-element--headline-parse-title (t) t] :commentedp [org-element-deferred org-element--headline-parse-title (t) t]))"

Re: org-element--cache: Added org-data parent to non-headline element

[Ihor Radchenko]

martyhiatt@riseup.net writes:

>> (setq org-element--cache-self-verify 'backtrace)
>> 
>
> i have a backtrace from my file, but it contains information i don't
> want to post to a public mailing list (my essay/notes). i tried again
> in a partly lorem ipsum-ified file and received the backtrace below
> when moving todo items around.
>
> is that of any help?

It does not look like a complete backtrace. Was there anything else in
the warning buffer?

> when playing around i noticed that the error only occurs when
> narrowing is in effect: i narrow in the main window then can cause the
> error in the secondary/cloned one.

This is useful information.

Also, since you are able to reproduce quickly with a constructed file,
any chance that you can also create a reproducer starting from clean
Emacs config?

-- 
Ihor Radchenko // yantar92,
Org mode contributor,
Learn more about Org mode at <https://orgmode.org/>.
Support Org development at <https://liberapay.com/org-mode>,
or support my work at <https://liberapay.com/yantar92>

Re: org-element--cache: Added org-data parent to non-headline element

[mousebot]

On 7/17/24 17:59, Ihor Radchenko wrote:
> martyhiatt@riseup.net writes:
> 
>>> (setq org-element--cache-self-verify 'backtrace)
>>>
>>
>> i have a backtrace from my file, but it contains information i don't
>> want to post to a public mailing list (my essay/notes). i tried again
>> in a partly lorem ipsum-ified file and received the backtrace below
>> when moving todo items around.
>>
>> is that of any help?
> 
> It does not look like a complete backtrace. Was there anything else in
> the warning buffer?

i copied the whole warning buffer after an error was triggered.

> 
>> when playing around i noticed that the error only occurs when
>> narrowing is in effect: i narrow in the main window then can cause the
>> error in the secondary/cloned one.
> 
> This is useful information.
> 
> Also, since you are able to reproduce quickly with a constructed file,
> any chance that you can also create a reproducer starting from clean
> Emacs config?
> 

i had another go:

- i made a purely lorem ipsum org file (can share if needed)
- loaded a minimal emacs config (the one i use for testing/debugging mastodon.el, can share)
- loaded a really minimal org config (can share if needed)
- loaded the org file
- repeated the already mentioned steps, triggering the error.

with this test file, when the error is triggered, the way the file breaks is that a second-level TODO heading is split after the first star, becoming a top-level heading with a single star on a previous line (often, not sure if always, i think other breakages happen also, with my original file other breakages happened).

a backtrace is below.

sometimes the warnings buffer gets subsequent information added to it, but i gather that's because we continue operating with a borked file. the backtrace below is a copy of the whole warnings buffer after only one error was triggered.

marty


⛔ Warning (org-element): org-element--cache: (org-metadown) Cached element is incorrect in org-bug-no-footnotes.org<2>. (Cache tic up to date: "no") Resetting.
If this warning appears regularly, please report the warning text to Org mode mailing list (M-x org-submit-bug-report).
The element is: "(headline (:standard-properties [342 342 nil nil 449 0 (:title) nil element t nil nil nil 2 #<buffer org-bug-no-footnotes.org> [org-element-deferred org-element--headline-deferred nil t] nil (headline (:standard-properties [3 3 20 2159 2159 0 ... first-section element t nil 22 2159 1 #<buffer org-bug-no-footnotes.org> [org-element-deferred org-element--headline-deferred nil t] nil ...] :pre-blank 1 :raw-value [org-element-deferred org-element--headline-raw-value ... t] :title [org-element-deferred org-element-property-2 ... nil] :level 1 :priority nil :tags nil :todo-keyword nil :todo-type nil :footnote-section-p [org-element-deferred org-element--headline-footnote-section-p nil nil] :archivedp [org-element-deferred org-element--headline-archivedp nil nil] :commentedp nil :fragile-cache nil))] :pre-blank 0 :raw-value [org-element-deferred org-element--headline-parse-title (t) t] :title [org-element-deferred org-element--headline-parse-title (t) t] :level [org-element-deferred org-element--headline-parse-title (t) t] :priority [org-element-deferred org-element--headline-parse-title (t) t] :tags [org-element-deferred org-element--headline-parse-title (t) t] :todo-keyword [org-element-deferred org-element--headline-parse-title (t) t] :todo-type [org-element-deferred org-element--headline-parse-title (t) t] :footnote-section-p [org-element-deferred org-element--headline-parse-title (t) t] :archivedp [org-element-deferred org-element--headline-parse-title (t) t] :commentedp [org-element-deferred org-element--headline-parse-title (t) t]))"
  The real element is: "(headline (:standard-properties [339 339 nil nil 343 0 (:title) nil nil nil nil nil nil 2 #<buffer org-bug-no-footnotes.org> [org-element-deferred org-element--headline-deferred nil t] nil [org-element-deferred org-element--headline-parent-deferred nil t]] :pre-blank 0 :raw-value [org-element-deferred org-element--headline-parse-title (t) t] :title [org-element-deferred org-element--headline-parse-title (t) t] :level [org-element-deferred org-element--headline-parse-title (t) t] :priority [org-element-deferred org-element--headline-parse-title (t) t] :tags [org-element-deferred org-element--headline-parse-title (t) t] :todo-keyword [org-element-deferred org-element--headline-parse-title (t) t] :todo-type [org-element-deferred org-element--headline-parse-title (t) t] :footnote-section-p [org-element-deferred org-element--headline-parse-title (t) t] :archivedp [org-element-deferred org-element--headline-parse-title (t) t] :commentedp [org-element-deferred org-element--headline-parse-title (t) t]))"
  Cache around :begin:
"(headline (:standard-properties [235 235 nil nil 342 0 (:title) nil element t nil nil nil 2 #<buffer org-bug-no-footnotes.org> [org-element-deferred org-element--headline-deferred nil t] nil (headline (:standard-properties [3 3 20 2159 2159 0 ... first-section element t nil 22 2159 1 #<buffer org-bug-no-footnotes.org> [org-element-deferred org-element--headline-deferred nil t] nil ...] :pre-blank 1 :raw-value [org-element-deferred org-element--headline-raw-value ... t] :title [org-element-deferred org-element-property-2 ... nil] :level 1 :priority nil :tags nil :todo-keyword nil :todo-type nil :footnote-section-p [org-element-deferred org-element--headline-footnote-section-p nil nil] :archivedp [org-element-deferred org-element--headline-archivedp nil nil] :commentedp nil :fragile-cache nil))] :pre-blank 0 :raw-value [org-element-deferred org-element--headline-parse-title (t) t] :title [org-element-deferred org-element--headline-parse-title (t) t] :level [org-element-deferred org-element--headline-parse-title (t) t] :priority [org-element-deferred org-element--headline-parse-title (t) t] :tags [org-element-deferred org-element--headline-parse-title (t) t] :todo-keyword [org-element-deferred org-element--headline-parse-title (t) t] :todo-type [org-element-deferred org-element--headline-parse-title (t) t] :footnote-section-p [org-element-deferred org-element--headline-parse-title (t) t] :archivedp [org-element-deferred org-element--headline-parse-title (t) t] :commentedp [org-element-deferred org-element--headline-parse-title (t) t]))"
"(headline (:standard-properties [235 235 nil nil 342 0 (:title) nil element t nil nil nil 2 #<buffer org-bug-no-footnotes.org> [org-element-deferred org-element--headline-deferred nil t] nil (headline (:standard-properties [3 3 20 2159 2159 0 ... first-section element t nil 22 2159 1 #<buffer org-bug-no-footnotes.org> [org-element-deferred org-element--headline-deferred nil t] nil ...] :pre-blank 1 :raw-value [org-element-deferred org-element--headline-raw-value ... t] :title [org-element-deferred org-element-property-2 ... nil] :level 1 :priority nil :tags nil :todo-keyword nil :todo-type nil :footnote-section-p [org-element-deferred org-element--headline-footnote-section-p nil nil] :archivedp [org-element-deferred org-element--headline-archivedp nil nil] :commentedp nil :fragile-cache nil))] :pre-blank 0 :raw-value [org-element-deferred org-element--headline-parse-title (t) t] :title [org-element-deferred org-element--headline-parse-title (t) t] :level [org-element-deferred org-element--headline-parse-title (t) t] :priority [org-element-deferred org-element--headline-parse-title (t) t] :tags [org-element-deferred org-element--headline-parse-title (t) t] :todo-keyword [org-element-deferred org-element--headline-parse-title (t) t] :todo-type [org-element-deferred org-element--headline-parse-title (t) t] :footnote-section-p [org-element-deferred org-element--headline-parse-title (t) t] :archivedp [org-element-deferred org-element--headline-parse-title (t) t] :commentedp [org-element-deferred org-element--headline-parse-title (t) t]))"
"(headline (:standard-properties [342 342 nil nil 449 0 (:title) nil element t nil nil nil 2 #<buffer org-bug-no-footnotes.org> [org-element-deferred org-element--headline-deferred nil t] nil (headline (:standard-properties [3 3 20 2159 2159 0 ... first-section element t nil 22 2159 1 #<buffer org-bug-no-footnotes.org> [org-element-deferred org-element--headline-deferred nil t] nil ...] :pre-blank 1 :raw-value [org-element-deferred org-element--headline-raw-value ... t] :title [org-element-deferred org-element-property-2 ... nil] :level 1 :priority nil :tags nil :todo-keyword nil :todo-type nil :footnote-section-p [org-element-deferred org-element--headline-footnote-section-p nil nil] :archivedp [org-element-deferred org-element--headline-archivedp nil nil] :commentedp nil :fragile-cache nil))] :pre-blank 0 :raw-value [org-element-deferred org-element--headline-parse-title (t) t] :title [org-element-deferred org-element--headline-parse-title (t) t] :level [org-element-deferred org-element--headline-parse-title (t) t] :priority [org-element-deferred org-element--headline-parse-title (t) t] :tags [org-element-deferred org-element--headline-parse-title (t) t] :todo-keyword [org-element-deferred org-element--headline-parse-title (t) t] :todo-type [org-element-deferred org-element--headline-parse-title (t) t] :footnote-section-p [org-element-deferred org-element--headline-parse-title (t) t] :archivedp [org-element-deferred org-element--headline-parse-title (t) t] :commentedp [org-element-deferred org-element--headline-parse-title (t) t]))"

Re: org-element--cache: Added org-data parent to non-headline element

[Ihor Radchenko]

mousebot <mousebot@riseup.net> writes:

>> It does not look like a complete backtrace. Was there anything else in
>> the warning buffer?
>
> i copied the whole warning buffer after an error was triggered.

Then, it looks like indirect buffer does not get registered for some reason.

> i had another go:
>
> - i made a purely lorem ipsum org file (can share if needed)
> - loaded a minimal emacs config (the one i use for testing/debugging mastodon.el, can share)
> - loaded a really minimal org config (can share if needed)
> - loaded the org file
> - repeated the already mentioned steps, triggering the error.
>
> with this test file, when the error is triggered, the way the file breaks is that a second-level TODO heading is split after the first star, becoming a top-level heading with a single star on a previous line (often, not sure if always, i think other breakages happen also, with my original file other breakages happened).

A full reproducer I can follow from emacs -Q (or make repro) would be very nice.

-- 
Ihor Radchenko // yantar92,
Org mode contributor,
Learn more about Org mode at <https://orgmode.org/>.
Support Org development at <https://liberapay.com/org-mode>,
or support my work at <https://liberapay.com/yantar92>