diff --git a/vllm/v1/worker/gpu/model_runner.py b/vllm/v1/worker/gpu/model_runner.py
index b81bd0dc59fc..6485444e6a2f 100644
--- a/vllm/v1/worker/gpu/model_runner.py
+++ b/vllm/v1/worker/gpu/model_runner.py
@@ -712,15 +712,26 @@ def add_requests(self, scheduler_output: SchedulerOutput) -> None:
             self.sampler.apply_staged_writes()
 
     def update_requests(self, scheduler_output: SchedulerOutput) -> None:
-        # Add new blocks for the existing requests.
+        # Add new blocks and update num_computed_tokens for the existing requests.
         reqs = scheduler_output.scheduled_cached_reqs
-        for req_new_block_ids, req_id in zip(reqs.new_block_ids, reqs.req_ids):
+        num_computed_tokens_np = self.req_states.num_computed_tokens_np
+        for req_id, num_computed_tokens, req_new_block_ids in zip(
+            reqs.req_ids, reqs.num_computed_tokens, reqs.new_block_ids
+        ):
+            req_index = self.req_states.req_id_to_index[req_id]
+            num_computed_tokens_np[req_index] = num_computed_tokens
             if req_new_block_ids is not None:
-                req_index = self.req_states.req_id_to_index[req_id]
                 self.block_tables.append_block_ids(
                     req_index, req_new_block_ids, overwrite=False
                 )
 
+        # Update num_computed_prefill_tokens.
+        np.minimum(
+            self.req_states.num_computed_tokens_np,
+            self.req_states.prefill_len.np,
+            out=self.req_states.num_computed_prefill_tokens,
+        )
+
     def prepare_inputs(
         self, scheduler_output: SchedulerOutput, batch_desc: BatchExecutionDescriptor
     ) -> InputBatch:
@@ -787,10 +798,7 @@ def prepare_inputs(
         async_copy_to_gpu(query_start_loc_np, out=self.input_buffers.query_start_loc)
         query_start_loc_np = query_start_loc_np[: num_reqs_padded + 1]
         query_start_loc = self.input_buffers.query_start_loc[: num_reqs_padded + 1]
-        is_prefilling_np = (
-            self.req_states.num_computed_prefill_tokens[idx_mapping_np]
-            < self.req_states.prefill_len.np[idx_mapping_np]
-        )
+        is_prefilling_np = self.req_states.is_prefilling(idx_mapping_np)
 
         # Get prefill tokens if any.
         if np.any(is_prefilling_np):
@@ -973,18 +981,6 @@ def postprocess(
             self.req_states.total_len.gpu,
         )
 
-        # Update the number of computed prefill tokens.
-        idx_mapping_np = input_batch.idx_mapping_np
-        computed_prefill = self.req_states.num_computed_prefill_tokens
-        computed_prefill[idx_mapping_np] += input_batch.num_scheduled_tokens
-        np.minimum(
-            computed_prefill, self.req_states.prefill_len.np, out=computed_prefill
-        )
-        # Advance the CPU mirror optimistically (assume all scheduled accepted).
-        self.req_states.num_computed_tokens_np[idx_mapping_np] += (
-            input_batch.num_scheduled_tokens
-        )
-
         self.model_state.postprocess_state(input_batch, num_sampled)
 
     @torch.inference_mode()
@@ -1357,18 +1353,6 @@ def postprocess_pool(self, input_batch: InputBatch) -> None:
             input_batch.query_start_loc,
         )
 
-        # Update the number of computed prefill tokens.
-        idx_mapping_np = input_batch.idx_mapping_np
-        computed_prefill = self.req_states.num_computed_prefill_tokens
-        computed_prefill[idx_mapping_np] += input_batch.num_scheduled_tokens
-        np.minimum(
-            computed_prefill, self.req_states.prefill_len.np, out=computed_prefill
-        )
-        # Advance the CPU mirror optimistically (assume all scheduled accepted).
-        self.req_states.num_computed_tokens_np[idx_mapping_np] += (
-            input_batch.num_scheduled_tokens
-        )
-
     def shutdown(self) -> None:
         """Release GPU tensors (model weights, KV caches, workspace) so that
         memory is reclaimable when running in the same process."""
diff --git a/vllm/v1/worker/gpu/states.py b/vllm/v1/worker/gpu/states.py
index 6268ea0ba673..cdd7286fa56e 100644
--- a/vllm/v1/worker/gpu/states.py
+++ b/vllm/v1/worker/gpu/states.py
@@ -104,9 +104,8 @@ def add_request(
         self.num_computed_prefill_tokens[req_idx] = num_computed_tokens
         self.num_computed_tokens_np[req_idx] = num_computed_tokens
         self.num_computed_tokens.stage_write_elem(req_idx, num_computed_tokens)
-        self.num_computed_tokens_np[req_idx] = num_computed_tokens
 
-        if num_computed_tokens > 0 and num_computed_tokens <= prefill_len:
+        if 0 < num_computed_tokens <= prefill_len:
             # For PD disagg or resumed requests: set last_sampled to the last
             # computed token so the first decode step gets the right input_id.
             # For fresh prefill requests (num_computed_tokens == 0) the tensor
@@ -134,8 +133,8 @@ def remove_request(self, req_id: str) -> bool:
         self.free_indices.append(req_idx)
         return True
 
-    def any_prefills(self, idx_mapping_np: np.ndarray) -> bool:
-        return np.any(
+    def is_prefilling(self, idx_mapping_np: np.ndarray) -> np.ndarray:
+        return (
             self.num_computed_prefill_tokens[idx_mapping_np]
             < self.prefill_len.np[idx_mapping_np]
         )