diff --git a/src/config_file.c b/src/config_file.c
index 56271144b..393a0b547 100644
--- a/src/config_file.c
+++ b/src/config_file.c
@@ -1522,6 +1522,9 @@ static int config_write(diskfile_backend *cfg, const char *key, const regex_t *p
 
 			git_filebuf_write(&file, reader->buffer.ptr, reader->buffer.size);
 
+			if (reader->buffer.size > 0 && *(reader->buffer.ptr + reader->buffer.size - 1) != '\n')
+				git_filebuf_write(&file, "\n", 1);
+
 			/* And now if we just need to add a variable */
 			if (!section_matches && write_section(&file, section) < 0)
 				goto rewrite_fail;
@@ -1536,9 +1539,6 @@ static int config_write(diskfile_backend *cfg, const char *key, const regex_t *p
 			}
 
 			/* If we are here, there is at least a section line */
-			if (reader->buffer.size > 0 && *(reader->buffer.ptr + reader->buffer.size - 1) != '\n')
-				git_filebuf_write(&file, "\n", 1);
-
 			q = quotes_for_value(value);
 			git_filebuf_printf(&file, "\t%s = %s%s%s\n", name, q, value, q);
 		}
diff --git a/tests/config/write.c b/tests/config/write.c
index 402be9317..0f11ae8da 100644
--- a/tests/config/write.c
+++ b/tests/config/write.c
@@ -229,6 +229,22 @@ void test_config_write__add_value_at_file_with_no_clrf_at_the_end(void)
 	git_config_free(cfg);
 }
 
+void test_config_write__add_section_at_file_with_no_clrf_at_the_end(void)
+{
+	git_config *cfg;
+	int i;
+
+	cl_git_pass(git_config_open_ondisk(&cfg, "config17"));
+	cl_git_pass(git_config_set_int32(cfg, "diff.context", 10));
+	git_config_free(cfg);
+
+	cl_git_pass(git_config_open_ondisk(&cfg, "config17"));
+	cl_git_pass(git_config_get_int32(&i, cfg, "diff.context"));
+	cl_assert_equal_i(10, i);
+
+	git_config_free(cfg);
+}
+
 void test_config_write__add_value_which_needs_quotes(void)
 {
 	git_config *cfg;