diff --git a/src/transformers/integrations/npu_flash_attention.py b/src/transformers/integrations/npu_flash_attention.py
index 716a3481a82a..f4c4e98da9b3 100644
--- a/src/transformers/integrations/npu_flash_attention.py
+++ b/src/transformers/integrations/npu_flash_attention.py
@@ -19,7 +19,7 @@
 
 
 if is_torch_npu_available():
-    from torch_npu import npu_fusion_attention, npu_rotary_mul
+    from torch_npu import npu_fusion_attention
 
 
 # FlashAttention2 is supported on Ascend NPU with down-right aligned causal mask by default.
@@ -136,19 +136,3 @@ def npu_flash_attn_varlen_func(
         )[0]
 
     return output
-
-
-def npu_apply_rotary_emb(x, cos, sin, **kwargs):
-    # cos tensor after chunk should be repeated through chunked dimension to original shape on Ascend NPU
-    if len(cos.shape) == 2 and cos.shape[-1] == x.shape[-1] // 2:
-        cos = cos.repeat(1, 2)
-        # cos tensor with [S,D] shape should be unsqueezed to 4-d tensor with shape [1,S,1,D]
-        cos = cos.unsqueeze(0).unsqueeze(2)
-
-    # sin tensor after chunk should be repeated through chunked dimension to original shape on Ascend NPU
-    if len(sin.shape) == 2 and sin.shape[-1] == x.shape[-1] // 2:
-        sin = sin.repeat(1, 2)
-        # sin tensor with [S,D] shape should be unsqueezed to 4-d tensor with shape [1,S,1,D]
-        sin = sin.unsqueeze(0).unsqueeze(2)
-
-    return npu_rotary_mul(x, cos, sin)
diff --git a/src/transformers/modeling_flash_attention_utils.py b/src/transformers/modeling_flash_attention_utils.py
index 0d8906076829..6b9e091c1a69 100644
--- a/src/transformers/modeling_flash_attention_utils.py
+++ b/src/transformers/modeling_flash_attention_utils.py
@@ -77,16 +77,20 @@ def _lazy_imports(implementation: Optional[str]):
     """
     is_fa2 = is_flash_attn_2_available()
     is_fa3 = is_flash_attn_3_available()
-    if implementation == "flash_attention_2" or (implementation is None and is_fa2 and not is_fa3):
+
+    pad_input, unpad_input = _pad_input, _unpad_input
+
+    if (implementation == "flash_attention_2" and is_fa2) or (implementation is None and is_fa2 and not is_fa3):
         from flash_attn import flash_attn_func, flash_attn_varlen_func
         from flash_attn.bert_padding import pad_input, unpad_input
+    elif is_torch_npu_available():
+        # Package `flash-attn` is unavailable on Ascend NPU, which will cause ImportError
+        # Flash-Attention2 related apis for Ascend NPU must be imported from `.integrations.npu_flash_attention` module
+        from .integrations.npu_flash_attention import npu_flash_attn_func as flash_attn_func
+        from .integrations.npu_flash_attention import npu_flash_attn_varlen_func as flash_attn_varlen_func
     else:
-        pad_input, unpad_input = _pad_input, _unpad_input
         if implementation == "flash_attention_3" or (implementation is None and is_fa3):
             from flash_attn_interface import flash_attn_func, flash_attn_varlen_func
-        elif is_torch_npu_available():
-            from .integrations.npu_flash_attention import npu_flash_attn_func as flash_attn_func
-            from .integrations.npu_flash_attention import npu_flash_attn_varlen_func as flash_attn_varlen_func
         # Kernels fallback
         else:
             flash_attn_func = getattr(implementation, "flash_attn_func", None)
diff --git a/src/transformers/models/qwen2_5_omni/modular_qwen2_5_omni.py b/src/transformers/models/qwen2_5_omni/modular_qwen2_5_omni.py
index bdb983df8487..498f8db1d610 100644
--- a/src/transformers/models/qwen2_5_omni/modular_qwen2_5_omni.py
+++ b/src/transformers/models/qwen2_5_omni/modular_qwen2_5_omni.py
@@ -44,7 +44,6 @@
 from ...cache_utils import Cache
 from ...configuration_utils import PretrainedConfig, layer_type_validation
 from ...generation import GenerationMixin
-from ...modeling_flash_attention_utils import is_flash_attn_available
 from ...modeling_outputs import BaseModelOutput, ModelOutput
 from ...modeling_rope_utils import rope_config_validation
 from ...modeling_utils import ALL_ATTENTION_FUNCTIONS
@@ -58,13 +57,6 @@
 from ...utils.hub import cached_file
 
 
-if is_flash_attn_available():
-    from ...modeling_flash_attention_utils import apply_rotary_emb, flash_attn_varlen_func
-else:
-    flash_attn_varlen_func = None
-    apply_rotary_emb = None
-
-
 logger = logging.get_logger(__name__)