diff --git a/ee/tuf/library_lookup.go b/ee/tuf/library_lookup.go
index 2f4713dcc1..876c2b16f4 100644
--- a/ee/tuf/library_lookup.go
+++ b/ee/tuf/library_lookup.go
@@ -28,6 +28,7 @@ type autoupdateConfig struct {
 	channel              string
 	localDevelopmentPath string
 	hostname             string
+	identifier           string
 }
 
 // CheckOutLatestWithoutConfig returns information about the latest downloaded executable for our binary,
@@ -50,13 +51,22 @@ func CheckOutLatestWithoutConfig(binary autoupdatableBinary, slogger *slog.Logge
 	// check for old root directories before returning final config in case we've stomped over with windows MSI install
 	updatedRootDirectory := launcher.DetermineRootDirectoryOverride(cfg.rootDirectory, cfg.hostname)
 	if updatedRootDirectory != cfg.rootDirectory {
-		slogger.Log(context.TODO(), slog.LevelInfo,
-			"old root directory contents detected, overriding for autoupdate config",
-			"opts_root_directory", cfg.rootDirectory,
-			"updated_root_directory", updatedRootDirectory,
-		)
-
-		cfg.rootDirectory = updatedRootDirectory
+		if cfg.identifier != "" && !strings.Contains(updatedRootDirectory, cfg.identifier) {
+			slogger.Log(context.TODO(), slog.LevelInfo,
+				"detected another root directory, but it does not match our identifier -- discarding",
+				"identifier", cfg.identifier,
+				"opts_root_directory", cfg.rootDirectory,
+				"non_matching_root_directory", updatedRootDirectory,
+			)
+		} else {
+			slogger.Log(context.TODO(), slog.LevelInfo,
+				"old root directory contents detected, overriding for autoupdate config",
+				"opts_root_directory", cfg.rootDirectory,
+				"updated_root_directory", updatedRootDirectory,
+			)
+
+			cfg.rootDirectory = updatedRootDirectory
+		}
 	}
 
 	// Get update channel from startup settings
@@ -125,13 +135,14 @@ func getAutoupdateConfig(args []string) (*autoupdateConfig, error) {
 	pflagSet.ParseErrorsWhitelist = pflag.ParseErrorsWhitelist{UnknownFlags: true}
 
 	// Extract the config flag plus the autoupdate flags
-	var flConfigFilePath, flRootDirectory, flUpdateDirectory, flUpdateChannel, flLocalDevelopmentPath, flHostname string
+	var flConfigFilePath, flRootDirectory, flUpdateDirectory, flUpdateChannel, flLocalDevelopmentPath, flHostname, flIdentifier string
 	pflagSet.StringVar(&flConfigFilePath, "config", "", "")
 	pflagSet.StringVar(&flRootDirectory, "root_directory", "", "")
 	pflagSet.StringVar(&flUpdateDirectory, "update_directory", "", "")
 	pflagSet.StringVar(&flUpdateChannel, "update_channel", "", "")
 	pflagSet.StringVar(&flLocalDevelopmentPath, "localdev_path", "", "")
 	pflagSet.StringVar(&flHostname, "hostname", "", "")
+	pflagSet.StringVar(&flIdentifier, "identifier", "", "")
 
 	if err := pflagSet.Parse(argsToParse); err != nil {
 		return nil, fmt.Errorf("parsing command-line flags: %w", err)
@@ -156,6 +167,7 @@ func getAutoupdateConfig(args []string) (*autoupdateConfig, error) {
 		updateDirectory:      flUpdateDirectory,
 		channel:              flUpdateChannel,
 		localDevelopmentPath: flLocalDevelopmentPath,
+		identifier:           flIdentifier,
 	}
 
 	return cfg, nil
@@ -187,6 +199,8 @@ func getAutoupdateConfigFromFile(configFilePath string) (*autoupdateConfig, erro
 			cfg.localDevelopmentPath = value
 		case "hostname":
 			cfg.hostname = value
+		case "identifier":
+			cfg.identifier = value
 		}
 		return nil
 	}); err != nil {
diff --git a/pkg/launcher/paths.go b/pkg/launcher/paths.go
index a1ad7af69c..b9ea21f19a 100644
--- a/pkg/launcher/paths.go
+++ b/pkg/launcher/paths.go
@@ -37,6 +37,8 @@ const (
 )
 
 var likelyWindowsRootDirPaths = []string{
+	"C:\\ProgramData\\Kolide\\Launcher-kolide-nababe-k2\\data",
+	"C:\\Program Files\\Kolide\\Launcher-kolide-nababe-k2\\data",
 	"C:\\ProgramData\\Kolide\\Launcher-kolide-k2\\data",
 	"C:\\Program Files\\Kolide\\Launcher-kolide-k2\\data",
 }