diff --git a/x-pack/legacy/plugins/siem/public/components/ml_popover/api.tsx b/x-pack/legacy/plugins/siem/public/components/ml_popover/api.tsx
index d2843b86f187d3..f711d27b4b22f5 100644
--- a/x-pack/legacy/plugins/siem/public/components/ml_popover/api.tsx
+++ b/x-pack/legacy/plugins/siem/public/components/ml_popover/api.tsx
@@ -21,7 +21,7 @@ import {
   throwIfErrorAttachedToSetup,
 } from '../ml/api/throw_if_not_ok';
 
-const emptyIndexPattern: string = '';
+const emptyIndexPattern: string[] = [];
 
 /**
  * Fetches ML Groups Data
@@ -196,7 +196,7 @@ export const jobsSummary = async (
  */
 export const getIndexPatterns = async (
   headers: Record<string, string | undefined>
-): Promise<string> => {
+): Promise<string[]> => {
   const response = await fetch(
     `${chrome.getBasePath()}/api/saved_objects/_find?type=index-pattern&fields=title&fields=type&per_page=10000`,
     {
@@ -214,15 +214,13 @@ export const getIndexPatterns = async (
   const results: IndexPatternResponse = await response.json();
 
   if (results.saved_objects && Array.isArray(results.saved_objects)) {
-    return results.saved_objects
-      .reduce(
-        (acc: string[], v) => [
-          ...acc,
-          ...(v.attributes && v.attributes.title ? [v.attributes.title] : []),
-        ],
-        []
-      )
-      .join(', ');
+    return results.saved_objects.reduce(
+      (acc: string[], v) => [
+        ...acc,
+        ...(v.attributes && v.attributes.title ? [v.attributes.title] : []),
+      ],
+      []
+    );
   } else {
     return emptyIndexPattern;
   }
diff --git a/x-pack/legacy/plugins/siem/public/components/ml_popover/helpers.test.tsx b/x-pack/legacy/plugins/siem/public/components/ml_popover/helpers.test.tsx
index 943d1ae1c9a08b..84bb6dea972f9e 100644
--- a/x-pack/legacy/plugins/siem/public/components/ml_popover/helpers.test.tsx
+++ b/x-pack/legacy/plugins/siem/public/components/ml_popover/helpers.test.tsx
@@ -34,7 +34,7 @@ describe('helpers', () => {
       const configTemplatesToInstall = getConfigTemplatesToInstall(
         mockConfigTemplates,
         [],
-        'auditbeat-*, winlogbeat-*'
+        ['auditbeat-*', 'winlogbeat-*']
       );
       expect(configTemplatesToInstall.length).toEqual(2);
     });
@@ -43,7 +43,7 @@ describe('helpers', () => {
       const configTemplatesToInstall = getConfigTemplatesToInstall(
         mockConfigTemplates,
         [],
-        'auditbeat-*, spongbeat-*'
+        ['auditbeat-*', 'spongbeat-*']
       );
       expect(configTemplatesToInstall.length).toEqual(1);
     });
@@ -52,10 +52,19 @@ describe('helpers', () => {
       const configTemplatesToInstall = getConfigTemplatesToInstall(
         mockConfigTemplates,
         mockInstalledJobIds,
-        'auditbeat-*, winlogbeat-*'
+        ['auditbeat-*', 'winlogbeat-*']
       );
       expect(configTemplatesToInstall.length).toEqual(2);
     });
+
+    test('returns no configTemplates if index is substring of indexPatterns', () => {
+      const configTemplatesToInstall = getConfigTemplatesToInstall(
+        mockConfigTemplates,
+        mockInstalledJobIds,
+        ['winlogbeat-**']
+      );
+      expect(configTemplatesToInstall.length).toEqual(0);
+    });
   });
 
   describe('getJobsToDisplay', () => {
diff --git a/x-pack/legacy/plugins/siem/public/components/ml_popover/helpers.tsx b/x-pack/legacy/plugins/siem/public/components/ml_popover/helpers.tsx
index f08724055d94b7..bdc311d235fd5b 100644
--- a/x-pack/legacy/plugins/siem/public/components/ml_popover/helpers.tsx
+++ b/x-pack/legacy/plugins/siem/public/components/ml_popover/helpers.tsx
@@ -19,16 +19,16 @@ export const getJobsToInstall = (templates: ConfigTemplate[]): string[] =>
  *
  * @param templates ConfigTemplates as provided by ML Team
  * @param installedJobIds list of installed JobIds
- * @param indexPattern Comma separated string of the user's currently configured IndexPattern
+ * @param indexPatterns list of the user's currently configured IndexPatterns
  */
 export const getConfigTemplatesToInstall = (
   templates: ConfigTemplate[],
   installedJobIds: string[],
-  indexPattern: string
+  indexPatterns: string[]
 ): ConfigTemplate[] =>
   templates
     .filter(ct => !ct.jobs.every(ctJobId => installedJobIds.includes(ctJobId)))
-    .filter(ct => indexPattern.indexOf(ct.defaultIndexPattern) >= 0);
+    .filter(ct => indexPatterns.includes(ct.defaultIndexPattern));
 
 /**
  * Returns a filtered array of Jobs that based on filterGroup selection (Elastic vs Custom Jobs) and any user provided filterQuery
diff --git a/x-pack/legacy/plugins/siem/public/components/ml_popover/hooks/use_index_patterns.tsx b/x-pack/legacy/plugins/siem/public/components/ml_popover/hooks/use_index_patterns.tsx
index 56f6942299c1de..22c586d00b9ea9 100644
--- a/x-pack/legacy/plugins/siem/public/components/ml_popover/hooks/use_index_patterns.tsx
+++ b/x-pack/legacy/plugins/siem/public/components/ml_popover/hooks/use_index_patterns.tsx
@@ -12,10 +12,10 @@ import { errorToToaster } from '../../ml/api/error_to_toaster';
 
 import * as i18n from './translations';
 
-type Return = [boolean, string];
+type Return = [boolean, string[]];
 
 export const useIndexPatterns = (refreshToggle = false): Return => {
-  const [indexPattern, setIndexPattern] = useState<string>('');
+  const [indexPatterns, setIndexPatterns] = useState<string[]>([]);
   const [isLoading, setIsLoading] = useState(true);
   const config = useContext(KibanaConfigContext);
   const [, dispatchToaster] = useStateToaster();
@@ -26,7 +26,7 @@ export const useIndexPatterns = (refreshToggle = false): Return => {
         'kbn-version': config.kbnVersion,
       });
 
-      setIndexPattern(data);
+      setIndexPatterns(data);
       setIsLoading(false);
     } catch (error) {
       errorToToaster({ title: i18n.INDEX_PATTERN_FETCH_FAILURE, error, dispatchToaster });
@@ -39,5 +39,5 @@ export const useIndexPatterns = (refreshToggle = false): Return => {
     fetchFunc();
   }, [refreshToggle]);
 
-  return [isLoading, indexPattern];
+  return [isLoading, indexPatterns];
 };
diff --git a/x-pack/legacy/plugins/siem/public/components/ml_popover/ml_popover.tsx b/x-pack/legacy/plugins/siem/public/components/ml_popover/ml_popover.tsx
index 252d3e61b906d2..b87b213767cac3 100644
--- a/x-pack/legacy/plugins/siem/public/components/ml_popover/ml_popover.tsx
+++ b/x-pack/legacy/plugins/siem/public/components/ml_popover/ml_popover.tsx
@@ -95,7 +95,7 @@ export const MlPopover = React.memo(() => {
   const [filterQuery, setFilterQuery] = useState('');
   const [, dispatchToaster] = useStateToaster();
 
-  const [, configuredIndexPattern] = useIndexPatterns(refreshToggle);
+  const [, configuredIndexPatterns] = useIndexPatterns(refreshToggle);
   const config = useContext(KibanaConfigContext);
   const capabilities = useContext(MlCapabilitiesContext);
   const headers = { 'kbn-version': config.kbnVersion };
@@ -136,7 +136,7 @@ export const MlPopover = React.memo(() => {
   const configTemplatesToInstall = getConfigTemplatesToInstall(
     configTemplates,
     installedJobIds,
-    configuredIndexPattern || ''
+    configuredIndexPatterns || []
   );
 
   // Filter installed job to show all 'siem' group jobs or just embedded
@@ -152,7 +152,7 @@ export const MlPopover = React.memo(() => {
   useEffect(() => {
     if (
       jobSummaryData != null &&
-      configuredIndexPattern !== '' &&
+      configuredIndexPatterns.length > 0 &&
       configTemplatesToInstall.length > 0
     ) {
       const setupJobs = async () => {
@@ -178,7 +178,7 @@ export const MlPopover = React.memo(() => {
       };
       setupJobs();
     }
-  }, [jobSummaryData, configuredIndexPattern]);
+  }, [jobSummaryData, configuredIndexPatterns]);
 
   if (!capabilities.isPlatinumOrTrialLicense) {
     // If the user does not have platinum show upgrade UI