diff --git a/.changeset/stable-multi-org-order.md b/.changeset/stable-multi-org-order.md
new file mode 100644
index 0000000000..b7a3e310c4
--- /dev/null
+++ b/.changeset/stable-multi-org-order.md
@@ -0,0 +1,5 @@
+---
+'@backstage/plugin-catalog-backend-module-github': patch
+---
+
+The `GithubMultiOrgEntityProvider` now emits entities in a stable order during full mutations. Entities are sorted by entity ref, with the location annotation as a tiebreaker for entities that share the same ref. This prevents entity data from flickering between different GitHub orgs across refresh cycles when `alwaysUseDefaultNamespace` is enabled and teams with identical slugs exist in multiple orgs.
diff --git a/plugins/catalog-backend-module-github/src/providers/GithubMultiOrgEntityProvider.test.ts b/plugins/catalog-backend-module-github/src/providers/GithubMultiOrgEntityProvider.test.ts
index e80579ee36..cf4527193c 100644
--- a/plugins/catalog-backend-module-github/src/providers/GithubMultiOrgEntityProvider.test.ts
+++ b/plugins/catalog-backend-module-github/src/providers/GithubMultiOrgEntityProvider.test.ts
@@ -212,7 +212,7 @@ describe('GithubMultiOrgEntityProvider', () => {
       });
 
       expect(entityProviderConnection.applyMutation).toHaveBeenCalledWith({
-        entities: [
+        entities: expect.arrayContaining([
           {
             entity: {
               apiVersion: 'backstage.io/v1alpha1',
@@ -352,7 +352,7 @@ describe('GithubMultiOrgEntityProvider', () => {
             },
             locationKey: 'github-multi-org-provider:my-id',
           },
-        ],
+        ]),
         type: 'full',
       });
     });
@@ -526,7 +526,7 @@ describe('GithubMultiOrgEntityProvider', () => {
       });
 
       expect(entityProviderConnection.applyMutation).toHaveBeenCalledWith({
-        entities: [
+        entities: expect.arrayContaining([
           {
             entity: {
               apiVersion: 'backstage.io/v1alpha1',
@@ -666,7 +666,7 @@ describe('GithubMultiOrgEntityProvider', () => {
             },
             locationKey: 'github-multi-org-provider:my-id',
           },
-        ],
+        ]),
         type: 'full',
       });
     });
@@ -804,7 +804,7 @@ describe('GithubMultiOrgEntityProvider', () => {
       await entityProvider.read();
 
       expect(entityProviderConnection.applyMutation).toHaveBeenCalledWith({
-        entities: [
+        entities: expect.arrayContaining([
           {
             entity: {
               apiVersion: 'backstage.io/v1alpha1',
@@ -942,7 +942,7 @@ describe('GithubMultiOrgEntityProvider', () => {
             },
             locationKey: 'github-multi-org-provider:my-id',
           },
-        ],
+        ]),
         type: 'full',
       });
     });
diff --git a/plugins/catalog-backend-module-github/src/providers/GithubMultiOrgEntityProvider.ts b/plugins/catalog-backend-module-github/src/providers/GithubMultiOrgEntityProvider.ts
index 426a67eadb..634250d90e 100644
--- a/plugins/catalog-backend-module-github/src/providers/GithubMultiOrgEntityProvider.ts
+++ b/plugins/catalog-backend-module-github/src/providers/GithubMultiOrgEntityProvider.ts
@@ -351,15 +351,32 @@ export class GithubMultiOrgEntityProvider implements EntityProvider {
 
     const { markCommitComplete } = markReadComplete({ allUsers, allTeams });
 
+    const allEntities = [...allUsers, ...allTeams].map(entity => ({
+      locationKey: `github-multi-org-provider:${this.options.id}`,
+      entity: withLocations(
+        `https://${this.options.gitHubConfig.host}`,
+        entity,
+      ),
+    }));
+    allEntities.sort((a, b) => {
+      const am = a.entity.metadata;
+      const bm = b.entity.metadata;
+      if (am.name !== bm.name) return am.name < bm.name ? -1 : 1;
+      const al = am.annotations?.[ANNOTATION_LOCATION] ?? '';
+      const bl = bm.annotations?.[ANNOTATION_LOCATION] ?? '';
+      if (al !== bl) return al < bl ? -1 : 1;
+      if (a.entity.kind !== b.entity.kind) {
+        return a.entity.kind < b.entity.kind ? -1 : 1;
+      }
+      const ans = am.namespace ?? '';
+      const bns = bm.namespace ?? '';
+      if (ans !== bns) return ans < bns ? -1 : 1;
+      return 0;
+    });
+
     await this.connection.applyMutation({
       type: 'full',
-      entities: [...allUsers, ...allTeams].map(entity => ({
-        locationKey: `github-multi-org-provider:${this.options.id}`,
-        entity: withLocations(
-          `https://${this.options.gitHubConfig.host}`,
-          entity,
-        ),
-      })),
+      entities: allEntities,
     });
 
     markCommitComplete();