diff --git a/vllm/v1/worker/gpu_model_runner.py b/vllm/v1/worker/gpu_model_runner.py
index 0960fe3a25fb..3da136dd30ed 100644
--- a/vllm/v1/worker/gpu_model_runner.py
+++ b/vllm/v1/worker/gpu_model_runner.py
@@ -2211,6 +2211,20 @@ def _bookkeeping_sync(
                 if i not in invalid_req_indices_set
             }
 
+        # Collect updates in the for loop and apply a batch update at the end
+        # to vectorize updates to tensors and numpy arrays.
+        start_indices = self.input_batch.num_tokens_no_spec.tolist()
+        # Indices and values to update for num_tokens and num_tokens_no_spec
+        num_tokens_indices: list[int] = []
+        num_tokens_values: list[int] = []
+        # Flatten indices and values to update for token_ids (2D numpy array)
+        token_ids_cpu_flatten_indices: list[int] = []
+        token_ids_cpu_values: list[int] = []
+        token_ids_cpu_column_cnt = self.input_batch.token_ids_cpu.shape[1]
+        # Flatten is_token_ids indices for update
+        is_token_flatten_indices: list[int] = []
+        is_token_column_cnt = self.input_batch.is_token_ids.shape[1]
+
         # Cache the sampled tokens in the model runner, so that the scheduler
         # doesn't need to send them back.
         # NOTE(woosuk): As an exception, when using PP, the scheduler sends
@@ -2226,23 +2240,57 @@ def _bookkeeping_sync(
             if not sampled_ids:
                 continue
 
-            start_idx = self.input_batch.num_tokens_no_spec[req_idx]
+            start_idx = start_indices[req_idx]
             end_idx = start_idx + len(sampled_ids)
             assert end_idx <= self.max_model_len, (
                 "Sampled token IDs exceed the max model length. "
                 f"Total number of tokens: {end_idx} > max_model_len: "
                 f"{self.max_model_len}")
 
-            self.input_batch.token_ids_cpu[req_idx,
-                                           start_idx:end_idx] = sampled_ids
-            self.input_batch.is_token_ids[req_idx, start_idx:end_idx] = True
-            self.input_batch.num_tokens_no_spec[req_idx] = end_idx
-            self.input_batch.num_tokens[req_idx] = end_idx
+            # Collect flattened indices and updated values a bulk token_ids_cpu
+            # update, which is equivilent to
+            # - self.input_batch.token_ids_cpu[req_idx,
+            #                                  start_idx:end_idx] = sampled_ids
+            base_idx = req_idx * token_ids_cpu_column_cnt
+            token_ids_cpu_flatten_indices.extend(
+                base_idx + idx for idx in range(start_idx, end_idx))
+            token_ids_cpu_values.extend(sampled_ids)
+            # Collect flattened indices for a bulk is_token_ids update, which
+            # is equivilent to
+            # - self.input_batch.is_token_ids[req_idx,
+            #                                 start_idx:end_idx] = True
+            base_idx = req_idx * is_token_column_cnt
+            is_token_flatten_indices.extend(
+                base_idx + idx for idx in range(start_idx, end_idx))
+            # Collect updates to num_tokens and num_tokens_no_spec,
+            # which is equivilent to
+            # - self.input_batch.num_tokens_no_spec[req_idx] = end_idx
+            # - self.input_batch.num_tokens[req_idx] = end_idx
+            num_tokens_indices.append(req_idx)
+            num_tokens_values.append(end_idx)
 
             req_id = req_ids[req_idx]
             req_state = self.requests[req_id]
             req_state.output_token_ids.extend(sampled_ids)
 
+        # Apply all tensor / numpy array updates in batch
+        if num_tokens_indices:
+            # Batch update num_tokens arrays
+            self.input_batch.num_tokens[num_tokens_indices] = num_tokens_values
+            self.input_batch.num_tokens_no_spec[
+                num_tokens_indices] = num_tokens_values
+        if token_ids_cpu_flatten_indices:
+            token_ids_cpu_view = self.input_batch.token_ids_cpu.ravel()
+            # Ensure ravel returned a view of the original numpy array
+            assert token_ids_cpu_view.base is self.input_batch.token_ids_cpu
+            token_ids_cpu_view[
+                token_ids_cpu_flatten_indices] = token_ids_cpu_values
+        if is_token_flatten_indices:
+            is_token_ids_view = self.input_batch.is_token_ids.ravel()
+            # Ensure ravel returned a view of the original tensor
+            assert is_token_ids_view._base is self.input_batch.is_token_ids
+            is_token_ids_view[is_token_flatten_indices] = True
+
         return (
             num_nans_in_logits,
             logprobs_lists,