diff --git a/eng/native/version/copy_version_files.ps1 b/eng/native/version/copy_version_files.ps1
index 705de544f2e1b1..35a6e1dcc14d4a 100644
--- a/eng/native/version/copy_version_files.ps1
+++ b/eng/native/version/copy_version_files.ps1
@@ -18,7 +18,8 @@ Get-ChildItem -Path "$VersionFolder" -Filter "_version.*" | ForEach-Object {
         } else {
             $is_placeholder_file = $true
         }
-        if ($is_placeholder_file -and $version_file_contents -ne $current_contents) {
+        # Only overwrite if the file is a placeholder (or missing) and the content has changed (non empty comparison -> true).
+        if ($is_placeholder_file -and (Compare-Object $version_file_contents $current_contents)) {
             $version_file_contents | Set-Content -Path $version_file_destination
         }
     } elseif (-not (Test-Path -Path "$RepoRoot\\artifacts\\obj\\$($_.Name)")) {