diff --git a/hugolib/content_map_page.go b/hugolib/content_map_page.go
index c3f06a592ba..5e8646b21c4 100644
--- a/hugolib/content_map_page.go
+++ b/hugolib/content_map_page.go
@@ -37,6 +37,7 @@ import (
 	"github.com/gohugoio/hugo/hugolib/doctree"
 	"github.com/gohugoio/hugo/hugolib/pagesfromdata"
 	"github.com/gohugoio/hugo/identity"
+	"github.com/gohugoio/hugo/lazy"
 	"github.com/gohugoio/hugo/media"
 	"github.com/gohugoio/hugo/output"
 	"github.com/gohugoio/hugo/resources"
@@ -109,6 +110,11 @@ type pageMap struct {
 	cfg contentMapConfig
 }
 
+// Invoked on rebuilds.
+func (m *pageMap) Reset() {
+	m.pageReverseIndex.Reset()
+}
+
 // pageTrees holds pages and resources in a tree structure for all sites/languages.
 // Each site gets its own tree set via the Shape method.
 type pageTrees struct {
@@ -958,9 +964,7 @@ type contentTreeReverseIndex struct {
 }
 
 func (c *contentTreeReverseIndex) Reset() {
-	c.contentTreeReverseIndexMap = &contentTreeReverseIndexMap{
-		m: make(map[any]contentNodeI),
-	}
+	c.init.ResetWithLock().Unlock()
 }
 
 func (c *contentTreeReverseIndex) Get(key any) contentNodeI {
@@ -972,7 +976,7 @@ func (c *contentTreeReverseIndex) Get(key any) contentNodeI {
 }
 
 type contentTreeReverseIndexMap struct {
-	init sync.Once
+	init lazy.OnceMore
 	m    map[any]contentNodeI
 }
 
diff --git a/hugolib/rendershortcodes_test.go b/hugolib/rendershortcodes_test.go
index 9a31b6536dc..0eebf46eb3e 100644
--- a/hugolib/rendershortcodes_test.go
+++ b/hugolib/rendershortcodes_test.go
@@ -445,3 +445,38 @@ code_p3
 	b.AssertNoRenderShortcodesArtifacts()
 	b.AssertFileContentEquals("public/p1/index.html", "<p>Content p1 id-100.</p>\n<code>codep2</code><p>Foo.\n</p>\n<code>code_p3_edited</code><p></p>\n<code>code_p1</code><code>code_p1_2</code><code>code_p1_3</code>")
 }
+
+// Issue 13004.
+func TestRenderShortcodesIncludeShortRefEdit(t *testing.T) {
+	t.Parallel()
+
+	files := `
+-- hugo.toml --
+disableLiveReload = true
+disableKinds = ["home", "taxonomy", "term", "section", "rss", "sitemap", "robotsTXT", "404"]
+-- content/first/p1.md --
+---
+title: "p1"
+---
+## p1-h1
+{{% include "p2" %}}
+-- content/second/p2.md --
+---
+title: "p2"
+---
+### p2-h1
+
+This is some **markup**.
+-- layouts/shortcodes/include.html --
+{{ $p := site.GetPage (.Get 0) -}}
+{{ $p.RenderShortcodes -}}
+-- layouts/_default/single.html --
+{{ .Content }}
+`
+	b := TestRunning(t, files)
+	b.AssertNoRenderShortcodesArtifacts()
+	b.AssertFileContentEquals("public/first/p1/index.html", "<h2 id=\"p1-h1\">p1-h1</h2>\n<p></p>\n<h3 id=\"p2-h1\">p2-h1</h3>\n<p>This is some <strong>markup</strong>.\n</p>\n")
+	b.EditFileReplaceAll("content/second/p2.md", "p2-h1", "p2-h1-edited").Build()
+	b.AssertNoRenderShortcodesArtifacts()
+	b.AssertFileContentEquals("public/first/p1/index.html", "<h2 id=\"p1-h1\">p1-h1</h2>\n<p></p>\n<h3 id=\"p2-h1-edited\">p2-h1-edited</h3>\n<p>This is some <strong>markup</strong>.\n</p>\n")
+}
diff --git a/hugolib/site.go b/hugolib/site.go
index 24ee5dcc506..c5a4956e228 100644
--- a/hugolib/site.go
+++ b/hugolib/site.go
@@ -1351,6 +1351,7 @@ func (s *Site) getLanguagePermalinkLang(alwaysInSubDir bool) string {
 func (s *Site) resetBuildState(sourceChanged bool) {
 	s.relatedDocsHandler = s.relatedDocsHandler.Clone()
 	s.init.Reset()
+	s.pageMap.Reset()
 }
 
 func (s *Site) errorCollator(results <-chan error, errs chan<- error) {
diff --git a/lazy/init.go b/lazy/init.go
index 7b88a53518b..bef3867a9a0 100644
--- a/lazy/init.go
+++ b/lazy/init.go
@@ -36,7 +36,7 @@ type Init struct {
 	prev     *Init
 	children []*Init
 
-	init onceMore
+	init OnceMore
 	out  any
 	err  error
 	f    func(context.Context) (any, error)
diff --git a/lazy/once.go b/lazy/once.go
index c6abcd88493..dac689df393 100644
--- a/lazy/once.go
+++ b/lazy/once.go
@@ -18,19 +18,19 @@ import (
 	"sync/atomic"
 )
 
-// onceMore is similar to sync.Once.
+// OnceMore is similar to sync.Once.
 //
 // Additional features are:
 // * it can be reset, so the action can be repeated if needed
 // * it has methods to check if it's done or in progress
 
-type onceMore struct {
+type OnceMore struct {
 	mu   sync.Mutex
 	lock uint32
 	done uint32
 }
 
-func (t *onceMore) Do(f func()) {
+func (t *OnceMore) Do(f func()) {
 	if atomic.LoadUint32(&t.done) == 1 {
 		return
 	}
@@ -53,15 +53,15 @@ func (t *onceMore) Do(f func()) {
 	f()
 }
 
-func (t *onceMore) InProgress() bool {
+func (t *OnceMore) InProgress() bool {
 	return atomic.LoadUint32(&t.lock) == 1
 }
 
-func (t *onceMore) Done() bool {
+func (t *OnceMore) Done() bool {
 	return atomic.LoadUint32(&t.done) == 1
 }
 
-func (t *onceMore) ResetWithLock() *sync.Mutex {
+func (t *OnceMore) ResetWithLock() *sync.Mutex {
 	t.mu.Lock()
 	defer atomic.StoreUint32(&t.done, 0)
 	return &t.mu