diff --git a/builtin/fast-import.c b/builtin/fast-import.c
index f7548ff4a3..19427e05f1 100644
--- a/builtin/fast-import.c
+++ b/builtin/fast-import.c
@@ -176,6 +176,7 @@ static FILE *pack_edges;
 static unsigned int show_stats = 1;
 static int global_argc;
 static const char **global_argv;
+static const char *global_prefix;
 
 /* Memory pools */
 static struct mem_pool fi_mem_pool = {
@@ -3246,7 +3247,7 @@ static void parse_alias(void)
 static char* make_fast_import_path(const char *path)
 {
 	if (!relative_marks_paths || is_absolute_path(path))
-		return xstrdup(path);
+		return prefix_filename(global_prefix, path);
 	return git_pathdup("info/fast-import/%s", path);
 }
 
@@ -3317,9 +3318,11 @@ static void option_cat_blob_fd(const char *fd)
 
 static void option_export_pack_edges(const char *edges)
 {
+	char *fn = prefix_filename(global_prefix, edges);
 	if (pack_edges)
 		fclose(pack_edges);
-	pack_edges = xfopen(edges, "a");
+	pack_edges = xfopen(fn, "a");
+	free(fn);
 }
 
 static void option_rewrite_submodules(const char *arg, struct string_list *list)
@@ -3334,11 +3337,13 @@ static void option_rewrite_submodules(const char *arg, struct string_list *list)
 	f++;
 	CALLOC_ARRAY(ms, 1);
 
+	f = prefix_filename(global_prefix, f);
 	fp = fopen(f, "r");
 	if (!fp)
 		die_errno("cannot read '%s'", f);
 	read_mark_file(&ms, fp, insert_oid_entry);
 	fclose(fp);
+	free(f);
 
 	string_list_insert(list, s)->util = ms;
 }
@@ -3552,6 +3557,7 @@ int cmd_fast_import(int argc, const char **argv, const char *prefix)
 
 	global_argc = argc;
 	global_argv = argv;
+	global_prefix = prefix;
 
 	rc_free = mem_pool_alloc(&fi_mem_pool, cmd_save * sizeof(*rc_free));
 	for (i = 0; i < (cmd_save - 1); i++)
diff --git a/t/t9304-fast-import-marks.sh b/t/t9304-fast-import-marks.sh
index a98ef032d9..410a871c52 100755
--- a/t/t9304-fast-import-marks.sh
+++ b/t/t9304-fast-import-marks.sh
@@ -49,4 +49,33 @@ test_expect_success 'import with submodule mapping' '
 	test_cmp expect actual
 '
 
+test_expect_success 'paths adjusted for relative subdir' '
+	git init deep-dst &&
+	mkdir deep-dst/subdir &&
+	>deep-dst/subdir/empty-marks &&
+	git -C deep-dst/subdir fast-import \
+		--rewrite-submodules-from=sub:../../from \
+		--rewrite-submodules-to=sub:../../to \
+		--import-marks=empty-marks \
+		--export-marks=exported-marks \
+		--export-pack-edges=exported-edges \
+		<dump &&
+	# we do not bother checking resulting repo; we just care that nothing
+	# complained about failing to open files for reading, and that files
+	# for writing were created in the expected spot
+	test_path_is_file deep-dst/subdir/exported-marks &&
+	test_path_is_file deep-dst/subdir/exported-edges
+'
+
+test_expect_success 'relative marks are not affected by subdir' '
+	git init deep-relative &&
+	mkdir deep-relative/subdir &&
+	git -C deep-relative/subdir fast-import \
+		--relative-marks \
+		--export-marks=exported-marks \
+		<dump &&
+	test_path_is_missing deep-relative/subdir/exported-marks &&
+	test_path_is_file deep-relative/.git/info/fast-import/exported-marks
+'
+
 test_done