diff --git a/common/flatpak-context.c b/common/flatpak-context.c
index 9226b045..64b7a71d 100644
--- a/common/flatpak-context.c
+++ b/common/flatpak-context.c
@@ -44,6 +44,7 @@
 #include "flatpak-error.h"
 #include "flatpak-metadata-private.h"
 #include "flatpak-usb-private.h"
+#include "flatpak-utils-base-private.h"
 #include "flatpak-utils-private.h"
 
 /* Same order as enum */
@@ -4051,6 +4052,8 @@ flatpak_context_export (FlatpakContext *context,
           const char *rest = NULL;
           const char *config_key = NULL;
           g_autofree char *subpath = NULL;
+          g_autofree char *canonical_path = NULL;
+          g_autofree char *canonical_home = NULL;
 
           if (!get_xdg_user_dir_from_string (filesystem, &config_key, &rest, &path))
             {
@@ -4061,7 +4064,10 @@ flatpak_context_export (FlatpakContext *context,
           if (path == NULL)
             continue; /* Unconfigured, ignore */
 
-          if (strcmp (path, g_get_home_dir ()) == 0)
+          canonical_path = flatpak_canonicalize_filename (path);
+          canonical_home = flatpak_canonicalize_filename (g_get_home_dir ());
+
+          if (strcmp (canonical_path, canonical_home) == 0)
             {
               /* xdg-user-dirs sets disabled dirs to $HOME, and its in general not a good
                  idea to set full access to $HOME other than explicitly, so we ignore