diff --git a/x-pack/plugins/maps/public/routing/routes/maps_app/maps_app_view.js b/x-pack/plugins/maps/public/routing/routes/maps_app/maps_app_view.js
index b26c44df251047..d7bb86de4f4a92 100644
--- a/x-pack/plugins/maps/public/routing/routes/maps_app/maps_app_view.js
+++ b/x-pack/plugins/maps/public/routing/routes/maps_app/maps_app_view.js
@@ -101,14 +101,6 @@ export class MapsAppView extends React.Component {
       this._globalSyncChangeMonitorSubscription.unsubscribe();
     }
 
-    // Clean up app state filters
-    const { filterManager } = getData().query;
-    filterManager.filters.forEach((filter) => {
-      if (filter.$state.store === esFilters.FilterStateStore.APP_STATE) {
-        filterManager.removeFilter(filter);
-      }
-    });
-
     getCoreChrome().setBreadcrumbs([]);
   }
 
diff --git a/x-pack/plugins/maps/public/routing/state_syncing/app_sync.js b/x-pack/plugins/maps/public/routing/state_syncing/app_sync.js
index 69d6dbbe0c4d32..c4cff5e4d87f05 100644
--- a/x-pack/plugins/maps/public/routing/state_syncing/app_sync.js
+++ b/x-pack/plugins/maps/public/routing/state_syncing/app_sync.js
@@ -15,6 +15,10 @@ export function useAppStateSyncing(appStateManager) {
   // sync app filters with app state container from data.query to state container
   const { query } = getData();
 
+  // Filter manager state persists across applications
+  // clear app state filters to prevent application filters from other applications being transfered to maps
+  query.filterManager.setAppFilters([]);
+
   const stateContainer = {
     get: () => ({
       query: appStateManager.getQuery(),