I am using a package called gnus-article-treat-patch[0] which colorizes
patches in emails. It works expected when I manually call
`ft/gnus-article-treat-patch' in a notmuch-show buffer, but it doesn't
work when I add it as a hook.

(add-hook 'notmuch-show-hook 'ft/gnus-article-treat-patch)

`notmuch-show-hook' seems to be called too early so
`ft/gnus-article-treat-patch' isn't able to read the contents of the
message and apply any highlighting.

I managed to get it to work with the following patch.

diff --git a/emacs/notmuch-show.el b/emacs/notmuch-show.el
index 056c4e30..f9f3bdb1 100644
--- a/emacs/notmuch-show.el
+++ b/emacs/notmuch-show.el
@@ -1317,11 +1317,11 @@ If no messages match the query return NIL."
				      (notmuch-sanitize
				       (notmuch-show-strip-re
					(notmuch-show-get-subject)))))
-      (run-hooks 'notmuch-show-hook)
       (if state
	  (notmuch-show-apply-state state)
	;; With no state to apply, just go to the first message.
-	(notmuch-show-goto-first-wanted-message)))
+	(notmuch-show-goto-first-wanted-message))
+      (run-hooks 'notmuch-show-hook))
     ;; Report back to the caller whether any messages matched.
     forest))

[0]: https://github.com/velkyel/gnus-article-treat-patch

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