diff --git a/internal/cmd/operator-sdk/generate/bundle/bundle.go b/internal/cmd/operator-sdk/generate/bundle/bundle.go
index cd772f25bae..5b5e636610a 100644
--- a/internal/cmd/operator-sdk/generate/bundle/bundle.go
+++ b/internal/cmd/operator-sdk/generate/bundle/bundle.go
@@ -286,7 +286,7 @@ func (c bundleCmd) runMetadata() error {
 			if !errors.As(err, &merr) {
 				return err
 			}
-		} else if !c.overwrite {
+		} else if !c.overwrite && !c.overwriteAnnotations {
 			return nil
 		}
 	}
@@ -302,6 +302,11 @@ func (c bundleCmd) runMetadata() error {
 		IsScoreConfigPresent: genutil.IsExist(scorecardConfigPath),
 	}
 
+	if c.overwriteAnnotations {
+		return bundleMetadata.GenerateAnnotations() // Overwrite only annotations.yaml
+	}
+
+	// If overwrite or metadata is generated for the first time, all files will be overwritten.
 	return bundleMetadata.GenerateMetadata()
 }
 
diff --git a/internal/cmd/operator-sdk/generate/bundle/cmd.go b/internal/cmd/operator-sdk/generate/bundle/cmd.go
index e4803a962b5..5737836dc94 100644
--- a/internal/cmd/operator-sdk/generate/bundle/cmd.go
+++ b/internal/cmd/operator-sdk/generate/bundle/cmd.go
@@ -42,9 +42,10 @@ type bundleCmd struct {
 	extraServiceAccounts []string
 
 	// Metadata options.
-	channels       string
-	defaultChannel string
-	overwrite      bool
+	channels             string
+	defaultChannel       string
+	overwrite            bool
+	overwriteAnnotations bool
 
 	// These are set if a PROJECT config is not present.
 	layout      string
@@ -63,6 +64,11 @@ func NewCmd() *cobra.Command {
 		Long:    longHelp,
 		Example: examples,
 		RunE: func(cmd *cobra.Command, args []string) error {
+			if c.overwriteAnnotations {
+				// Priority control, when checking --overwrite-annotations, set --overwrite to false
+				c.overwrite = false
+			}
+
 			if len(args) != 0 {
 				return fmt.Errorf("command %s doesn't accept any arguments", cmd.CommandPath())
 			}
@@ -138,6 +144,7 @@ func (c *bundleCmd) addFlagsTo(fs *pflag.FlagSet) {
 		"Names of service accounts, outside of the operator's Deployment account, "+
 			"that have bindings to {Cluster}Roles that should be added to the CSV")
 	fs.BoolVar(&c.overwrite, "overwrite", true, "Overwrite the bundle's metadata and Dockerfile if they exist")
+	fs.BoolVar(&c.overwriteAnnotations, "overwrite-annotations", false, "Only overwrite annotations.yaml without modifying bundle.Dockerfile")
 	fs.BoolVarP(&c.quiet, "quiet", "q", false, "Run in quiet mode")
 	fs.BoolVar(&c.stdout, "stdout", false, "Write bundle manifest to stdout")
 
diff --git a/internal/util/bundleutil/bundleutil.go b/internal/util/bundleutil/bundleutil.go
index 7a30dce03a9..2e34a51fc58 100644
--- a/internal/util/bundleutil/bundleutil.go
+++ b/internal/util/bundleutil/bundleutil.go
@@ -140,6 +140,54 @@ func (meta *BundleMetaData) GenerateMetadata() error {
 	return nil
 }
 
+// GenerateAnnotations generates the annotations.yaml file using the provided
+// annotation values for the Operator Bundle.
+func (meta *BundleMetaData) GenerateAnnotations() error {
+	// Ensure the output directory exists
+	metadataDir := filepath.Join(meta.BundleDir, defaultMetadataDir)
+	if err := os.MkdirAll(metadataDir, projutil.DirMode); err != nil {
+		return err
+	}
+
+	// Prepare annotation values
+	values := annotationsValues{
+		BundleDir:                meta.BundleDir,
+		PackageName:              meta.PackageName,
+		Channels:                 meta.Channels,
+		DefaultChannel:           meta.DefaultChannel,
+		IsScorecardConfigPresent: meta.IsScoreConfigPresent,
+	}
+
+	// Add any other labels to the values
+	for k, v := range meta.OtherLabels {
+		values.OtherLabels = append(values.OtherLabels, fmt.Sprintf("%s=%s", k, v))
+	}
+	sort.Strings(values.OtherLabels)
+
+	// Define the path to annotations.yaml
+	annotationsPath := filepath.Join(metadataDir, "annotations.yaml")
+
+	// Open (or create) the annotations.yaml file
+	f, err := os.OpenFile(annotationsPath, os.O_WRONLY|os.O_CREATE|os.O_TRUNC, 0666)
+	if err != nil {
+		return err
+	}
+	defer func() {
+		if err := f.Close(); err != nil {
+			log.Error(err)
+		}
+	}()
+
+	// Create and execute the annotations template
+	err = annotationsTemplate.Execute(f, values)
+	if err != nil {
+		return err
+	}
+
+	log.Infof("Annotations generated successfully at %s", annotationsPath)
+	return nil
+}
+
 // CopyOperatorManifests copies packagemanifestsDir/manifests to bundleDir/manifests.
 func (meta *BundleMetaData) CopyOperatorManifests() error {
 	return copyOperatorManifests(meta.PkgmanifestPath, filepath.Join(meta.BundleDir, defaultManifestDir))
diff --git a/website/content/en/docs/cli/operator-sdk_generate_bundle.md b/website/content/en/docs/cli/operator-sdk_generate_bundle.md
index 84aa231d861..afd52e54558 100644
--- a/website/content/en/docs/cli/operator-sdk_generate_bundle.md
+++ b/website/content/en/docs/cli/operator-sdk_generate_bundle.md
@@ -100,6 +100,7 @@ operator-sdk generate bundle [flags]
       --metadata                         Generate bundle metadata and Dockerfile
       --output-dir string                Directory to write the bundle to
       --overwrite                        Overwrite the bundle's metadata and Dockerfile if they exist (default true)
+      --overwrite-annotations            Only overwrite annotations.yaml without modifying bundle.Dockerfile
       --package string                   Bundle's package name
   -q, --quiet                            Run in quiet mode
       --stdout                           Write bundle manifest to stdout