diff --git a/bundle/config/mutator/sync_infer_root.go b/bundle/config/mutator/sync_infer_root.go
index 65ca2abca5..012acf8001 100644
--- a/bundle/config/mutator/sync_infer_root.go
+++ b/bundle/config/mutator/sync_infer_root.go
@@ -57,7 +57,7 @@ func (m *syncInferRoot) Apply(ctx context.Context, b *bundle.Bundle) diag.Diagno
 	var diags diag.Diagnostics
 
 	// Use the bundle root path as the starting point for inferring the sync root path.
-	bundleRootPath := b.RootPath
+	bundleRootPath := filepath.Clean(b.RootPath)
 
 	// Infer the sync root path by looking at each one of the sync paths.
 	// Every sync path must be a descendant of the final sync root path.