diff --git a/packages/cli/src/environments.ee/source-control/__tests__/source-control-helper.ee.test.ts b/packages/cli/src/environments.ee/source-control/__tests__/source-control-helper.ee.test.ts
index 29bd09fb0c..5748bf2321 100644
--- a/packages/cli/src/environments.ee/source-control/__tests__/source-control-helper.ee.test.ts
+++ b/packages/cli/src/environments.ee/source-control/__tests__/source-control-helper.ee.test.ts
@@ -15,11 +15,28 @@ import {
 	getTrackingInformationFromPostPushResult,
 	getTrackingInformationFromPrePushResult,
 	getTrackingInformationFromPullResult,
+	isWorkflowModified,
 	sourceControlFoldersExistCheck,
 } from '@/environments.ee/source-control/source-control-helper.ee';
 import type { SourceControlPreferencesService } from '@/environments.ee/source-control/source-control-preferences.service.ee';
 import type { License } from '@/license';
 
+import type { SourceControlWorkflowVersionId } from '../types/source-control-workflow-version-id';
+
+function createWorkflowVersion(
+	overrides: Partial<SourceControlWorkflowVersionId> = {},
+): SourceControlWorkflowVersionId {
+	return {
+		id: 'workflow123',
+		versionId: 'version1',
+		filename: 'workflows/workflow123.json',
+		parentFolderId: 'folder1',
+		updatedAt: '2023-07-10T10:10:59.000Z',
+		name: 'Test Workflow',
+		...overrides,
+	};
+}
+
 const pushResult: SourceControlledFile[] = [
 	{
 		file: 'credential_stubs/kkookWGIeey9K4Kt.json',
@@ -252,3 +269,47 @@ describe('Source Control', () => {
 		});
 	});
 });
+
+describe('isWorkflowModified', () => {
+	it('should detect modifications when version IDs differ', () => {
+		const local = createWorkflowVersion();
+		const remote = createWorkflowVersion({ versionId: 'version2' });
+
+		expect(isWorkflowModified(local, remote)).toBe(true);
+	});
+
+	it('should detect modifications when parent folder IDs differ', () => {
+		const local = createWorkflowVersion();
+		const remote = createWorkflowVersion({ parentFolderId: 'folder2' });
+
+		expect(isWorkflowModified(local, remote)).toBe(true);
+	});
+
+	it('should not detect modifications when version IDs and parent folder IDs are the same', () => {
+		const local = createWorkflowVersion();
+		const remote = createWorkflowVersion();
+
+		expect(isWorkflowModified(local, remote)).toBe(false);
+	});
+
+	it('should not consider it modified when remote parent folder ID is undefined', () => {
+		const local = createWorkflowVersion();
+		const remote = createWorkflowVersion({ parentFolderId: undefined });
+
+		expect(isWorkflowModified(local, remote)).toBe(false);
+	});
+
+	it('should detect modifications when parent folder IDs differ and remote parent folder ID is defined', () => {
+		const local = createWorkflowVersion({ parentFolderId: null });
+		const remote = createWorkflowVersion();
+
+		expect(isWorkflowModified(local, remote)).toBe(true);
+	});
+
+	it('should handle null parent folder IDs correctly', () => {
+		const local = createWorkflowVersion({ parentFolderId: null });
+		const remote = createWorkflowVersion({ parentFolderId: null });
+
+		expect(isWorkflowModified(local, remote)).toBe(false);
+	});
+});
diff --git a/packages/cli/src/environments.ee/source-control/source-control-helper.ee.ts b/packages/cli/src/environments.ee/source-control/source-control-helper.ee.ts
index 1dc436ac6f..bd83b23ca9 100644
--- a/packages/cli/src/environments.ee/source-control/source-control-helper.ee.ts
+++ b/packages/cli/src/environments.ee/source-control/source-control-helper.ee.ts
@@ -18,6 +18,7 @@ import {
 } from './constants';
 import type { KeyPair } from './types/key-pair';
 import type { KeyPairType } from './types/key-pair-type';
+import type { SourceControlWorkflowVersionId } from './types/source-control-workflow-version-id';
 
 export function stringContainsExpression(testString: string): boolean {
 	return /^=.*\{\{.*\}\}/.test(testString);
@@ -204,3 +205,17 @@ export function normalizeAndValidateSourceControlledFilePath(
 
 	return normalizedPath;
 }
+
+/**
+ * Checks if a workflow has been modified by comparing version IDs and parent folder IDs
+ * between local and remote versions
+ */
+export function isWorkflowModified(
+	local: SourceControlWorkflowVersionId,
+	remote: SourceControlWorkflowVersionId,
+): boolean {
+	return (
+		remote.versionId !== local.versionId ||
+		(remote.parentFolderId !== undefined && remote.parentFolderId !== local.parentFolderId)
+	);
+}
diff --git a/packages/cli/src/environments.ee/source-control/source-control.service.ee.ts b/packages/cli/src/environments.ee/source-control/source-control.service.ee.ts
index 51d7e587f2..0e9fe5b2ba 100644
--- a/packages/cli/src/environments.ee/source-control/source-control.service.ee.ts
+++ b/packages/cli/src/environments.ee/source-control/source-control.service.ee.ts
@@ -32,6 +32,7 @@ import {
 	getTrackingInformationFromPrePushResult,
 	getTrackingInformationFromPullResult,
 	getVariablesPath,
+	isWorkflowModified,
 	normalizeAndValidateSourceControlledFilePath,
 	sourceControlFoldersExistCheck,
 } from './source-control-helper.ee';
@@ -571,25 +572,37 @@ export class SourceControlService {
 		);
 
 		const wfModifiedInEither: SourceControlWorkflowVersionId[] = [];
-		wfLocalVersionIds.forEach((local) => {
-			const mismatchingIds = wfRemoteVersionIds.find(
-				(remote) =>
-					remote.id === local.id &&
-					(remote.versionId !== local.versionId || remote.parentFolderId !== local.parentFolderId),
+
+		wfLocalVersionIds.forEach((localWorkflow) => {
+			const remoteWorkflowWithSameId = wfRemoteVersionIds.find(
+				(removeWorkflow) => removeWorkflow.id === localWorkflow.id,
 			);
-			let name = (options?.preferLocalVersion ? local?.name : mismatchingIds?.name) ?? 'Workflow';
-			if (local.name && mismatchingIds?.name && local.name !== mismatchingIds.name) {
-				name = options?.preferLocalVersion
-					? `${local.name} (Remote: ${mismatchingIds.name})`
-					: (name = `${mismatchingIds.name} (Local: ${local.name})`);
+
+			if (!remoteWorkflowWithSameId) {
+				return;
 			}
-			if (mismatchingIds) {
+
+			if (isWorkflowModified(localWorkflow, remoteWorkflowWithSameId)) {
+				let name =
+					(options?.preferLocalVersion ? localWorkflow?.name : remoteWorkflowWithSameId?.name) ??
+					'Workflow';
+				if (
+					localWorkflow.name &&
+					remoteWorkflowWithSameId?.name &&
+					localWorkflow.name !== remoteWorkflowWithSameId.name
+				) {
+					name = options?.preferLocalVersion
+						? `${localWorkflow.name} (Remote: ${remoteWorkflowWithSameId.name})`
+						: (name = `${remoteWorkflowWithSameId.name} (Local: ${localWorkflow.name})`);
+				}
 				wfModifiedInEither.push({
-					...local,
+					...localWorkflow,
 					name,
-					versionId: options.preferLocalVersion ? local.versionId : mismatchingIds.versionId,
-					localId: local.versionId,
-					remoteId: mismatchingIds.versionId,
+					versionId: options.preferLocalVersion
+						? localWorkflow.versionId
+						: remoteWorkflowWithSameId.versionId,
+					localId: localWorkflow.versionId,
+					remoteId: remoteWorkflowWithSameId.versionId,
 				});
 			}
 		});