diff --git a/openpype/modules/sync_server/sync_server_module.py b/openpype/modules/sync_server/sync_server_module.py
index caf58503f1..2c27571f9f 100644
--- a/openpype/modules/sync_server/sync_server_module.py
+++ b/openpype/modules/sync_server/sync_server_module.py
@@ -848,6 +848,11 @@ class SyncServerModule(OpenPypeModule, ITrayModule):
         if self.enabled and sync_settings.get('enabled'):
             sites.append(self.LOCAL_SITE)
 
+        active_site = sync_settings["config"]["active_site"]
+        # for Tray running background process
+        if active_site not in sites and active_site == get_local_site_id():
+            sites.append(active_site)
+
         return sites
 
     def tray_init(self):
diff --git a/openpype/plugins/publish/integrate_new.py b/openpype/plugins/publish/integrate_new.py
index 959fd3bbee..5dcbb8fabd 100644
--- a/openpype/plugins/publish/integrate_new.py
+++ b/openpype/plugins/publish/integrate_new.py
@@ -8,6 +8,7 @@ import errno
 import six
 import re
 import shutil
+from collections import deque, defaultdict
 
 from bson.objectid import ObjectId
 from pymongo import DeleteOne, InsertOne
@@ -1116,18 +1117,17 @@ class IntegrateAssetNew(pyblish.api.InstancePlugin):
                     rec["sites"].append(meta)
                     already_attached_sites[meta["name"]] = None
 
+                # add alternative sites
+                rec, already_attached_sites = self._add_alternative_sites(
+                    system_sync_server_presets, already_attached_sites, rec)
+
                 # add skeleton for site where it should be always synced to
-                for always_on_site in always_accesible:
+                for always_on_site in set(always_accesible):
                     if always_on_site not in already_attached_sites.keys():
                         meta = {"name": always_on_site.strip()}
                         rec["sites"].append(meta)
                         already_attached_sites[meta["name"]] = None
 
-                # add alternative sites
-                rec = self._add_alternative_sites(system_sync_server_presets,
-                                                  already_attached_sites,
-                                                  rec)
-
             log.debug("final sites:: {}".format(rec["sites"]))
 
         return rec
@@ -1158,22 +1158,60 @@ class IntegrateAssetNew(pyblish.api.InstancePlugin):
         """
         conf_sites = system_sync_server_presets.get("sites", {})
 
+        alt_site_pairs = self._get_alt_site_pairs(conf_sites)
+
+        already_attached_keys = list(already_attached_sites.keys())
+        for added_site in already_attached_keys:
+            real_created = already_attached_sites[added_site]
+            for alt_site in alt_site_pairs.get(added_site, []):
+                if alt_site in already_attached_sites.keys():
+                    continue
+                meta = {"name": alt_site}
+                # alt site inherits state of 'created_dt'
+                if real_created:
+                    meta["created_dt"] = real_created
+                rec["sites"].append(meta)
+                already_attached_sites[meta["name"]] = real_created
+
+        return rec, already_attached_sites
+
+    def _get_alt_site_pairs(self, conf_sites):
+        """Returns dict of site and its alternative sites.
+
+        If `site` has alternative site, it means that alt_site has 'site' as
+        alternative site
+        Args:
+            conf_sites (dict)
+        Returns:
+            (dict): {'site': [alternative sites]...}
+        """
+        alt_site_pairs = defaultdict(list)
         for site_name, site_info in conf_sites.items():
             alt_sites = set(site_info.get("alternative_sites", []))
-            already_attached_keys = list(already_attached_sites.keys())
-            for added_site in already_attached_keys:
-                if added_site in alt_sites:
-                    if site_name in already_attached_keys:
-                        continue
-                    meta = {"name": site_name}
-                    real_created = already_attached_sites[added_site]
-                    # alt site inherits state of 'created_dt'
-                    if real_created:
-                        meta["created_dt"] = real_created
-                    rec["sites"].append(meta)
-                    already_attached_sites[meta["name"]] = real_created
+            alt_site_pairs[site_name].extend(alt_sites)
 
-        return rec
+            for alt_site in alt_sites:
+                alt_site_pairs[alt_site].append(site_name)
+
+        for site_name, alt_sites in alt_site_pairs.items():
+            sites_queue = deque(alt_sites)
+            while sites_queue:
+                alt_site = sites_queue.popleft()
+
+                # safety against wrong config
+                # {"SFTP": {"alternative_site": "SFTP"}
+                if alt_site == site_name or alt_site not in alt_site_pairs:
+                    continue
+
+                for alt_alt_site in alt_site_pairs[alt_site]:
+                    if (
+                            alt_alt_site != site_name
+                            and alt_alt_site not in alt_sites
+                    ):
+                        alt_sites.append(alt_alt_site)
+                        sites_queue.append(alt_alt_site)
+
+        return alt_site_pairs
 
     def handle_destination_files(self, integrated_file_sizes, mode):
         """ Clean destination files