diff --git a/x-pack/plugins/ml/public/application/data_frame_analytics/pages/analytics_management/components/source_selection/source_selection.tsx b/x-pack/plugins/ml/public/application/data_frame_analytics/pages/analytics_management/components/source_selection/source_selection.tsx
index ae03a0779edf1..5aa0ccc46a5cd 100644
--- a/x-pack/plugins/ml/public/application/data_frame_analytics/pages/analytics_management/components/source_selection/source_selection.tsx
+++ b/x-pack/plugins/ml/public/application/data_frame_analytics/pages/analytics_management/components/source_selection/source_selection.tsx
@@ -11,7 +11,7 @@ import { EuiCallOut, EuiPageBody, EuiPanel, EuiSpacer } from '@elastic/eui';
 import { i18n } from '@kbn/i18n';
 import { getNestedProperty } from '@kbn/ml-nested-property';
 import { SavedObjectFinder } from '@kbn/saved-objects-finder-plugin/public';
-import type { SavedObjectCommon } from '@kbn/saved-objects-finder-plugin/common';
+import type { FinderAttributes, SavedObjectCommon } from '@kbn/saved-objects-finder-plugin/common';
 import { CreateDataViewButton } from '../../../../../components/create_data_view_button';
 import { useMlKibana, useNavigateToPath } from '../../../../../contexts/kibana';
 import { useToastNotificationService } from '../../../../../services/toast_notification_service';
@@ -22,6 +22,8 @@ import {
 
 const fixedPageSize: number = 20;
 
+type SavedObject = SavedObjectCommon<FinderAttributes & { isTextBasedQuery?: boolean }>;
+
 export const SourceSelection: FC = () => {
   const {
     services: {
@@ -41,7 +43,7 @@ export const SourceSelection: FC = () => {
     id: string,
     type: string,
     fullName?: string,
-    savedObject?: SavedObjectCommon
+    savedObject?: SavedObject
   ) => {
     // Kibana data views including `:` are cross-cluster search indices
     // and are not supported by Data Frame Analytics yet. For saved searches
@@ -142,6 +144,9 @@ export const SourceSelection: FC = () => {
                     defaultMessage: 'Saved search',
                   }
                 ),
+                showSavedObject: (savedObject: SavedObject) =>
+                  // ES|QL Based saved searches are not supported in DFA, filter them out
+                  savedObject.attributes.isTextBasedQuery !== true,
               },
               {
                 type: 'index-pattern',
diff --git a/x-pack/plugins/ml/public/application/datavisualizer/data_drift/index_patterns_picker.tsx b/x-pack/plugins/ml/public/application/datavisualizer/data_drift/index_patterns_picker.tsx
index 04dd9ca764ab0..1f31ce934e442 100644
--- a/x-pack/plugins/ml/public/application/datavisualizer/data_drift/index_patterns_picker.tsx
+++ b/x-pack/plugins/ml/public/application/datavisualizer/data_drift/index_patterns_picker.tsx
@@ -14,12 +14,16 @@ import { FormattedMessage } from '@kbn/i18n-react';
 import { SavedObjectFinder } from '@kbn/saved-objects-finder-plugin/public';
 import { type DataViewEditorService as DataViewEditorServiceSpec } from '@kbn/data-view-editor-plugin/public';
 import { INDEX_PATTERN_TYPE } from '@kbn/data-views-plugin/public';
+import type { FinderAttributes, SavedObjectCommon } from '@kbn/saved-objects-finder-plugin/common';
 import { createPath } from '../../routing/router';
 import { ML_PAGES } from '../../../../common/constants/locator';
 import { DataDriftIndexPatternsEditor } from './data_drift_index_patterns_editor';
 
 import { MlPageHeader } from '../../components/page_header';
 import { useMlKibana, useNavigateToPath } from '../../contexts/kibana';
+
+type SavedObject = SavedObjectCommon<FinderAttributes & { isTextBasedQuery?: boolean }>;
+
 export const DataDriftIndexOrSearchRedirect: FC = () => {
   const navigateToPath = useNavigateToPath();
   const { contentManagement, uiSettings } = useMlKibana().services;
@@ -65,6 +69,9 @@ export const DataDriftIndexOrSearchRedirect: FC = () => {
                     defaultMessage: 'Saved search',
                   }
                 ),
+                showSavedObject: (savedObject: SavedObject) =>
+                  // ES|QL Based saved searches are not supported in Data Drift, filter them out
+                  savedObject.attributes.isTextBasedQuery !== true,
               },
               {
                 type: 'index-pattern',
diff --git a/x-pack/plugins/ml/public/application/jobs/new_job/pages/index_or_search/page.tsx b/x-pack/plugins/ml/public/application/jobs/new_job/pages/index_or_search/page.tsx
index 972b8dc09e3ef..6e630ca61886f 100644
--- a/x-pack/plugins/ml/public/application/jobs/new_job/pages/index_or_search/page.tsx
+++ b/x-pack/plugins/ml/public/application/jobs/new_job/pages/index_or_search/page.tsx
@@ -11,6 +11,7 @@ import { EuiFlexGroup, EuiPageBody, EuiPanel } from '@elastic/eui';
 import { i18n } from '@kbn/i18n';
 import { FormattedMessage } from '@kbn/i18n-react';
 import { SavedObjectFinder } from '@kbn/saved-objects-finder-plugin/public';
+import type { FinderAttributes, SavedObjectCommon } from '@kbn/saved-objects-finder-plugin/common';
 import { CreateDataViewButton } from '../../../../components/create_data_view_button';
 import { useMlKibana, useNavigateToPath } from '../../../../contexts/kibana';
 import { MlPageHeader } from '../../../../components/page_header';
@@ -21,6 +22,8 @@ export interface PageProps {
 
 const RESULTS_PER_PAGE = 20;
 
+type SavedObject = SavedObjectCommon<FinderAttributes & { isTextBasedQuery?: boolean }>;
+
 export const Page: FC<PageProps> = ({
   nextStepPath,
   extraButtons,
@@ -69,6 +72,9 @@ export const Page: FC<PageProps> = ({
                     defaultMessage: 'Saved search',
                   }
                 ),
+                showSavedObject: (savedObject: SavedObject) =>
+                  // ES|QL Based saved searches are not supported across ML, filter them out
+                  savedObject.attributes.isTextBasedQuery !== true,
               },
               {
                 type: 'index-pattern',
diff --git a/x-pack/plugins/transform/public/app/sections/transform_management/components/search_selection/search_selection.tsx b/x-pack/plugins/transform/public/app/sections/transform_management/components/search_selection/search_selection.tsx
index 3c6fcc67f0c7e..7c0b03f7b9856 100644
--- a/x-pack/plugins/transform/public/app/sections/transform_management/components/search_selection/search_selection.tsx
+++ b/x-pack/plugins/transform/public/app/sections/transform_management/components/search_selection/search_selection.tsx
@@ -11,6 +11,7 @@ import { FormattedMessage } from '@kbn/i18n-react';
 import React, { type FC, Fragment } from 'react';
 
 import { SavedObjectFinder } from '@kbn/saved-objects-finder-plugin/public';
+import type { FinderAttributes, SavedObjectCommon } from '@kbn/saved-objects-finder-plugin/common';
 import { useAppDependencies } from '../../../../app_dependencies';
 
 interface SearchSelectionProps {
@@ -19,6 +20,8 @@ interface SearchSelectionProps {
   canEditDataView: boolean;
 }
 
+type SavedObject = SavedObjectCommon<FinderAttributes & { isTextBasedQuery?: boolean }>;
+
 const fixedPageSize: number = 8;
 
 export const SearchSelection: FC<SearchSelectionProps> = ({
@@ -64,6 +67,9 @@ export const SearchSelection: FC<SearchSelectionProps> = ({
                   defaultMessage: 'Saved search',
                 }
               ),
+              showSavedObject: (savedObject: SavedObject) =>
+                // ES|QL Based saved searches are not supported in transforms, filter them out
+                savedObject.attributes.isTextBasedQuery !== true,
             },
             {
               type: 'index-pattern',