diff --git a/contrib/config/luet.yaml b/contrib/config/luet.yaml
index 840f196a..95171f98 100644
--- a/contrib/config/luet.yaml
+++ b/contrib/config/luet.yaml
@@ -69,6 +69,7 @@
 #   Default $TMPDIR/tmpluet
 #   tmpdir_base: "/tmp/tmpluet"
 #
+#
 # ---------------------------------------------
 # Repositories configurations directories.
 # ---------------------------------------------
@@ -93,6 +94,11 @@
 # annotation.
 # config_protect_skip: false
 #
+# The paths used for load repositories and config
+# protects are based on host rootfs.
+# If set to false rootfs path is used as prefix.
+# config_from_host: true
+#
 # System repositories
 # ---------------------------------------------
 # In alternative to define repositories files
diff --git a/pkg/config/config.go b/pkg/config/config.go
index c4e1f217..f4263fca 100644
--- a/pkg/config/config.go
+++ b/pkg/config/config.go
@@ -208,6 +208,7 @@ type LuetConfig struct {
 	RepositoriesConfDir  []string         `mapstructure:"repos_confdir"`
 	ConfigProtectConfDir []string         `mapstructure:"config_protect_confdir"`
 	ConfigProtectSkip    bool             `mapstructure:"config_protect_skip"`
+	ConfigFromHost       bool             `mapstructure:"config_from_host"`
 	CacheRepositories    []LuetRepository `mapstructure:"repetitors"`
 	SystemRepositories   []LuetRepository `mapstructure:"repositories"`
 
@@ -255,6 +256,8 @@ func GenDefault(viper *v.Viper) {
 	viper.SetDefault("repos_confdir", []string{"/etc/luet/repos.conf.d"})
 	viper.SetDefault("config_protect_confdir", []string{"/etc/luet/config.protect.d"})
 	viper.SetDefault("config_protect_skip", false)
+	// TODO: Set default to false when we are ready for migration.
+	viper.SetDefault("config_from_host", true)
 	viper.SetDefault("cache_repositories", []string{})
 	viper.SetDefault("system_repositories", []string{})
 
diff --git a/pkg/installer/config_protect.go b/pkg/installer/config_protect.go
index 42ebe69d..6ec3d5c8 100644
--- a/pkg/installer/config_protect.go
+++ b/pkg/installer/config_protect.go
@@ -30,11 +30,16 @@ import (
 
 func LoadConfigProtectConfs(c *LuetConfig) error {
 	var regexConfs = regexp.MustCompile(`.yml$`)
+	var err error
+
+	rootfs := ""
 
 	// Respect the rootfs param on read repositories
-	rootfs, err := c.GetSystem().GetRootFsAbs()
-	if err != nil {
-		return err
+	if !c.ConfigFromHost {
+		rootfs, err = c.GetSystem().GetRootFsAbs()
+		if err != nil {
+			return err
+		}
 	}
 
 	for _, cdir := range c.ConfigProtectConfDir {
diff --git a/pkg/repository/loader.go b/pkg/repository/loader.go
index 08b5c018..e702a50d 100644
--- a/pkg/repository/loader.go
+++ b/pkg/repository/loader.go
@@ -30,11 +30,15 @@ import (
 
 func LoadRepositories(c *LuetConfig) error {
 	var regexRepo = regexp.MustCompile(`.yml$|.yaml$`)
+	var err error
+	rootfs := ""
 
 	// Respect the rootfs param on read repositories
-	rootfs, err := c.GetSystem().GetRootFsAbs()
-	if err != nil {
-		return err
+	if !c.ConfigFromHost {
+		rootfs, err = c.GetSystem().GetRootFsAbs()
+		if err != nil {
+			return err
+		}
 	}
 
 	for _, rdir := range c.RepositoriesConfDir {