diff --git a/test/functional/services/test_subjects.ts b/test/functional/services/test_subjects.ts
index c5e360d09395..b0c4e8732c26 100644
--- a/test/functional/services/test_subjects.ts
+++ b/test/functional/services/test_subjects.ts
@@ -27,6 +27,10 @@ interface ExistsOptions {
   allowHidden?: boolean;
 }
 
+interface ClearOptions {
+  withKeyboard: boolean;
+}
+
 export function TestSubjectsProvider({ getService }: FtrProviderContext) {
   const log = getService('log');
   const retry = getService('retry');
@@ -151,7 +155,11 @@ export function TestSubjectsProvider({ getService }: FtrProviderContext) {
       });
     }
 
-    public async setValue(selector: string, text: string): Promise<void> {
+    public async setValue(
+      selector: string,
+      text: string,
+      options: ClearOptions = { withKeyboard: false }
+    ): Promise<void> {
       return await retry.try(async () => {
         log.debug(`TestSubjects.setValue(${selector}, ${text})`);
         await this.click(selector);
@@ -159,7 +167,11 @@ export function TestSubjectsProvider({ getService }: FtrProviderContext) {
         // call clearValue() and type() on the element that is focused after
         // clicking on the testSubject
         const input = await find.activeElement();
-        await input.clearValue();
+        if (options.withKeyboard === true) {
+          await input.clearValueWithKeyboard();
+        } else {
+          await input.clearValue();
+        }
         await input.type(text);
       });
     }
diff --git a/x-pack/test/functional/apps/machine_learning/index.ts b/x-pack/test/functional/apps/machine_learning/index.ts
index fbd7de66d552..5ddbfe59fb64 100644
--- a/x-pack/test/functional/apps/machine_learning/index.ts
+++ b/x-pack/test/functional/apps/machine_learning/index.ts
@@ -6,8 +6,7 @@
 import { FtrProviderContext } from '../../ftr_provider_context';
 
 export default function({ loadTestFile }: FtrProviderContext) {
-  // FLAKY: https://github.com/elastic/kibana/issues/46674
-  describe.skip('machine learning', function() {
+  describe('machine learning', function() {
     this.tags('ciGroup3');
 
     loadTestFile(require.resolve('./feature_controls'));
diff --git a/x-pack/test/functional/services/machine_learning/job_wizard_common.ts b/x-pack/test/functional/services/machine_learning/job_wizard_common.ts
index d6e09e8c818f..19a270cdab5f 100644
--- a/x-pack/test/functional/services/machine_learning/job_wizard_common.ts
+++ b/x-pack/test/functional/services/machine_learning/job_wizard_common.ts
@@ -181,15 +181,17 @@ export function MachineLearningJobWizardCommonProvider({ getService }: FtrProvid
     },
 
     async setBucketSpan(bucketSpan: string) {
-      await testSubjects.setValue('mlJobWizardInputBucketSpan', bucketSpan);
+      await testSubjects.setValue('mlJobWizardInputBucketSpan', bucketSpan, { withKeyboard: true });
     },
 
     async setJobId(jobId: string) {
-      await testSubjects.setValue('mlJobWizardInputJobId', jobId);
+      await testSubjects.setValue('mlJobWizardInputJobId', jobId, { withKeyboard: true });
     },
 
     async setJobDescription(jobDescription: string) {
-      await testSubjects.setValue('mlJobWizardInputJobDescription', jobDescription);
+      await testSubjects.setValue('mlJobWizardInputJobDescription', jobDescription, {
+        withKeyboard: true,
+      });
     },
 
     async addJobGroup(jobGroup: string) {
@@ -216,7 +218,9 @@ export function MachineLearningJobWizardCommonProvider({ getService }: FtrProvid
     },
 
     async setModelMemoryLimit(modelMemoryLimit: string) {
-      await testSubjects.setValue('mlJobWizardInputModelMemoryLimit', modelMemoryLimit);
+      await testSubjects.setValue('mlJobWizardInputModelMemoryLimit', modelMemoryLimit, {
+        withKeyboard: true,
+      });
     },
 
     async createJobAndWaitForCompletion() {