diff --git a/packages/zod/src/v4/classic/tests/to-json-schema.test.ts b/packages/zod/src/v4/classic/tests/to-json-schema.test.ts
index 3397900456..58a12c2cf7 100644
--- a/packages/zod/src/v4/classic/tests/to-json-schema.test.ts
+++ b/packages/zod/src/v4/classic/tests/to-json-schema.test.ts
@@ -1535,6 +1535,52 @@ test("describe with id", () => {
   `);
 });
 
+test("override with id", () => {
+  const jobId = z.string().meta({ id: "jobIdFoo" });
+
+  const a = z.z.toJSONSchema(
+    z.object({
+      current: jobId.describe("Current job"),
+      previous: jobId.describe("Previous job"),
+    }),
+    {
+      override(ctx) {
+        if (ctx.path.join("/") === "$defs/jobIdFoo") {
+          ctx.jsonSchema.id = "jobIdChanged";
+        }
+      },
+    }
+  );
+
+  expect(a).toMatchInlineSnapshot(`
+    {
+      "$defs": {
+        "jobIdFoo": {
+          "id": "jobIdChanged",
+          "type": "string",
+        },
+      },
+      "$schema": "https://json-schema.org/draft/2020-12/schema",
+      "additionalProperties": false,
+      "properties": {
+        "current": {
+          "$ref": "#/$defs/jobIdFoo",
+          "description": "Current job",
+        },
+        "previous": {
+          "$ref": "#/$defs/jobIdFoo",
+          "description": "Previous job",
+        },
+      },
+      "required": [
+        "current",
+        "previous",
+      ],
+      "type": "object",
+    }
+  `);
+});
+
 test("overwrite id", () => {
   const jobId = z.string().meta({ id: "aaa" });
 
diff --git a/packages/zod/src/v4/core/to-json-schema.ts b/packages/zod/src/v4/core/to-json-schema.ts
index 787c3a311c..96000c3641 100644
--- a/packages/zod/src/v4/core/to-json-schema.ts
+++ b/packages/zod/src/v4/core/to-json-schema.ts
@@ -817,9 +817,17 @@ export class JSONSchemaGenerator {
 
     // build defs object
     const defs: JSONSchema.BaseSchema["$defs"] = params.external?.defs ?? {};
+
+    const rootKey = this.target === "draft-2020-12" ? "$defs" : "definitions";
+
     for (const entry of this.seen.entries()) {
       const seen = entry[1];
       if (seen.def && seen.defId) {
+        this.override({
+          zodSchema: entry[0] as schemas.$ZodTypes,
+          jsonSchema: seen.def,
+          path: [rootKey, seen.defId],
+        });
         defs[seen.defId] = seen.def;
       }
     }