diff --git libpkg/pkg_add.c libpkg/pkg_add.c
index 1daffe4..de3398f 100644
--- libpkg/pkg_add.c
+++ libpkg/pkg_add.c
@@ -262,7 +262,8 @@ pkg_add(struct pkgdb *db, const char *path, unsigned flags, struct pkg_manifest_
 			snprintf(dpath, sizeof(dpath), "%s/%s-%s%s", basedir,
 			    dep_name, dep_ver, ext);
 
-			if ((flags & PKG_ADD_UPGRADE) == 0 &&
+			if ((pkg->type == PKG_FILE ||
+			     (flags & PKG_ADD_UPGRADE) == 0) &&
 			    access(dpath, F_OK) == 0) {
 				ret = pkg_add(db, dpath, PKG_ADD_AUTOMATIC, keys);
 				if (ret != EPKG_OK) {