diff --git a/browser/ui/webui/brave_new_tab_page_refresh/new_tab_page_initializer.cc b/browser/ui/webui/brave_new_tab_page_refresh/new_tab_page_initializer.cc
index 9ab1bb091d3..d2663da8579 100644
--- a/browser/ui/webui/brave_new_tab_page_refresh/new_tab_page_initializer.cc
+++ b/browser/ui/webui/brave_new_tab_page_refresh/new_tab_page_initializer.cc
@@ -20,6 +20,7 @@
 #include "brave/components/ai_chat/core/common/buildflags/buildflags.h"
 #include "brave/components/brave_news/common/buildflags/buildflags.h"
 #include "brave/components/brave_rewards/core/buildflags/buildflags.h"
+#include "brave/components/brave_search_conversion/pref_names.h"
 #include "brave/components/brave_talk/buildflags/buildflags.h"
 #include "brave/components/brave_vpn/common/buildflags/buildflags.h"
 #include "brave/components/constants/pref_names.h"
@@ -130,6 +131,35 @@ void NewTabPageInitializer::Initialize() {
                               std::make_unique<ThemeSource>(GetProfile()));
 }
 
+// static
+void NewTabPageInitializer::MigrateProfilePrefs(PrefService* prefs) {
+  // Added 2026-03: Migrate "hide all widgets" into individual widget prefs.
+  if (prefs->GetBoolean(kNewTabPageHideAllWidgets)) {
+    prefs->SetBoolean(kNewTabPageHideAllWidgets, false);
+    prefs->SetBoolean(kNewTabPageShowRewards, false);
+#if BUILDFLAG(ENABLE_BRAVE_TALK)
+    prefs->SetBoolean(brave_talk::prefs::kNewTabPageShowBraveTalk, false);
+#endif
+#if BUILDFLAG(ENABLE_BRAVE_VPN)
+    prefs->SetBoolean(kNewTabPageShowBraveVPN, false);
+#endif
+  }
+  prefs->ClearPref(kNewTabPageHideAllWidgets);
+
+  // Added 2026-04: Set chat input visibility to hidden if the user has
+  // explicitly hidden the search input.
+  using brave_search_conversion::prefs::kMigratedNTPChatInputFromSearch;
+  using brave_search_conversion::prefs::kShowNTPChatInput;
+  using brave_search_conversion::prefs::kShowNTPSearchBox;
+  if (!prefs->GetBoolean(kMigratedNTPChatInputFromSearch)) {
+    prefs->SetBoolean(kMigratedNTPChatInputFromSearch, true);
+    if (auto* user_value = prefs->GetUserPrefValue(kShowNTPSearchBox);
+        user_value && !user_value->GetBool()) {
+      prefs->SetBoolean(kShowNTPChatInput, false);
+    }
+  }
+}
+
 Profile* NewTabPageInitializer::GetProfile() {
   return Profile::FromWebUI(&web_ui_.get());
 }
diff --git a/browser/ui/webui/brave_new_tab_page_refresh/new_tab_page_initializer.h b/browser/ui/webui/brave_new_tab_page_refresh/new_tab_page_initializer.h
index 749955d74e6..c99cd80ef48 100644
--- a/browser/ui/webui/brave_new_tab_page_refresh/new_tab_page_initializer.h
+++ b/browser/ui/webui/brave_new_tab_page_refresh/new_tab_page_initializer.h
@@ -20,6 +20,7 @@ namespace regional_capabilities {
 class RegionalCapabilitiesService;
 }
 
+class PrefService;
 class Profile;
 
 namespace brave_new_tab_page_refresh {
@@ -41,6 +42,9 @@ class NewTabPageInitializer {
 
   void Initialize();
 
+  // Migrates profile prefs associated with the NTP.
+  static void MigrateProfilePrefs(PrefService* prefs);
+
  private:
   Profile* GetProfile();
 
diff --git a/chromium_src/chrome/browser/prefs/browser_prefs.cc b/chromium_src/chrome/browser/prefs/browser_prefs.cc
index b2ad59b81a1..113d543e78c 100644
--- a/chromium_src/chrome/browser/prefs/browser_prefs.cc
+++ b/chromium_src/chrome/browser/prefs/browser_prefs.cc
@@ -18,7 +18,6 @@
 #include "brave/components/brave_shields/content/browser/ad_block_service.h"
 #include "brave/components/brave_shields/core/browser/brave_shields_p3a.h"
 #include "brave/components/brave_sync/brave_sync_prefs.h"
-#include "brave/components/brave_talk/buildflags/buildflags.h"
 #include "brave/components/brave_vpn/common/buildflags/buildflags.h"
 #include "brave/components/brave_wallet/common/buildflags/buildflags.h"
 #include "brave/components/constants/pref_names.h"
@@ -59,12 +58,9 @@
 #include "brave/browser/brave_rewards/rewards_prefs_util.h"
 #endif
 
-#if BUILDFLAG(ENABLE_BRAVE_TALK)
-#include "brave/components/brave_talk/pref_names.h"
-#endif
-
 #if !BUILDFLAG(IS_ANDROID)
 #include "brave/browser/ui/tabs/brave_tab_prefs.h"
+#include "brave/browser/ui/webui/brave_new_tab_page_refresh/new_tab_page_initializer.h"
 #include "brave/browser/ui/webui/welcome_page/brave_welcome_ui_prefs.h"
 #endif
 
@@ -258,18 +254,10 @@ void MigrateObsoleteProfilePrefs(PrefService* profile_prefs,
 #endif
 
   // Added 2026-03
-  if (profile_prefs->GetBoolean(kNewTabPageHideAllWidgets)) {
-    profile_prefs->SetBoolean(kNewTabPageHideAllWidgets, false);
-    profile_prefs->SetBoolean(kNewTabPageShowRewards, false);
-#if BUILDFLAG(ENABLE_BRAVE_TALK)
-    profile_prefs->SetBoolean(brave_talk::prefs::kNewTabPageShowBraveTalk,
-                              false);
+#if !BUILDFLAG(IS_ANDROID)
+  brave_new_tab_page_refresh::NewTabPageInitializer::MigrateProfilePrefs(
+      profile_prefs);
 #endif
-#if BUILDFLAG(ENABLE_BRAVE_VPN)
-    profile_prefs->SetBoolean(kNewTabPageShowBraveVPN, false);
-#endif
-  }
-  profile_prefs->ClearPref(kNewTabPageHideAllWidgets);
 
   // END_MIGRATE_OBSOLETE_PROFILE_PREFS
 }
diff --git a/components/brave_search_conversion/pref_names.h b/components/brave_search_conversion/pref_names.h
index c9f7612b0c1..138be95a3f3 100644
--- a/components/brave_search_conversion/pref_names.h
+++ b/components/brave_search_conversion/pref_names.h
@@ -29,6 +29,9 @@ inline constexpr char kShowNTPSearchBox[] =
 
 inline constexpr char kShowNTPChatInput[] = "brave.brave_search.show-ntp-chat";
 
+inline constexpr char kMigratedNTPChatInputFromSearch[] =
+    "brave.brave_search.migrated-ntp-chat-from-search";
+
 inline constexpr char kLastUsedNTPSearchEngine[] =
     "brave.brave_search.last-used-ntp-search-engine";
 
diff --git a/components/brave_search_conversion/utils.cc b/components/brave_search_conversion/utils.cc
index 5a7d06e5547..9c496ff67ee 100644
--- a/components/brave_search_conversion/utils.cc
+++ b/components/brave_search_conversion/utils.cc
@@ -172,6 +172,7 @@ void RegisterPrefs(PrefRegistrySimple* registry) {
   registry->RegisterBooleanPref(prefs::kDismissed, false);
   registry->RegisterBooleanPref(prefs::kShowNTPSearchBox, true);
   registry->RegisterBooleanPref(prefs::kShowNTPChatInput, true);
+  registry->RegisterBooleanPref(prefs::kMigratedNTPChatInputFromSearch, false);
   registry->RegisterStringPref(prefs::kLastUsedNTPSearchEngine,
                                "search.brave.com");
   registry->RegisterBooleanPref(prefs::kPromptEnableSuggestions, true);