diff --git a/src/pkg/packager/prepare.go b/src/pkg/packager/prepare.go
index 1e43335898..92d8c7363a 100644
--- a/src/pkg/packager/prepare.go
+++ b/src/pkg/packager/prepare.go
@@ -209,7 +209,8 @@ func (p *Packager) findImages(ctx context.Context) (map[string][]string, error)
 			for idx, k := range manifest.Kustomizations {
 				// Generate manifests from kustomizations and place in the package
 				kname := fmt.Sprintf("kustomization-%s-%d.yaml", manifest.Name, idx)
-				destination := filepath.Join(componentPaths.Manifests, kname)
+				// Use the temp folder because "helpers.CreatePathAndCopy" will with the same path will result in the file being empty
+				destination := filepath.Join(componentPaths.Temp, kname)
 				if err := kustomize.Build(k, destination, manifest.KustomizeAllowAnyDirectory); err != nil {
 					return nil, fmt.Errorf("unable to build the kustomization for %s: %w", k, err)
 				}