diff --git a/.github/actions/build_pandas/action.yml b/.github/actions/build_pandas/action.yml
index b92bacd1a537c..3ee10efaaf96f 100644
--- a/.github/actions/build_pandas/action.yml
+++ b/.github/actions/build_pandas/action.yml
@@ -25,10 +25,8 @@ runs:
     - name: Build Pandas
       run: |
         if [[ ${{ inputs.editable }} == "true" ]]; then
-          pip install -e . --no-build-isolation -v --no-deps \
-            -Csetup-args="--werror"
+          pip install -e . --no-build-isolation -v --no-deps
         else
-          pip install . --no-build-isolation -v --no-deps \
-            -Csetup-args="--werror"
+          pip install . --no-build-isolation -v --no-deps
         fi
       shell: bash -el {0}
diff --git a/.github/workflows/code-checks.yml b/.github/workflows/code-checks.yml
index e1d2d1ea846b8..6acb8634beff4 100644
--- a/.github/workflows/code-checks.yml
+++ b/.github/workflows/code-checks.yml
@@ -13,6 +13,7 @@ on:
 env:
   ENV_FILE: environment.yml
   PANDAS_CI: 1
+  PKG_CONFIG_PATH: "${{env.PYTHONHOME}}/numpy/_core/lib/pkgconfig"
 
 permissions:
   contents: read
diff --git a/.github/workflows/docbuild-and-upload.yml b/.github/workflows/docbuild-and-upload.yml
index 294334ca1d54b..db3fa8d17b764 100644
--- a/.github/workflows/docbuild-and-upload.yml
+++ b/.github/workflows/docbuild-and-upload.yml
@@ -40,11 +40,18 @@ jobs:
       with:
         fetch-depth: 0
 
+    - name: Determine NumPy pkg-config location
+      run: |
+        echo "PKG_CONFIG_PATH=$(python -c 'import site; print(site.getsitepackages()[0])')/numpy/_core/lib/pkgconfig" >> $GITHUB_ENV
+
     - name: Set up Conda
       uses: ./.github/actions/setup-conda
 
     - name: Build Pandas
       uses: ./.github/actions/build_pandas
+      env:
+        CIBW_ENVIRONMENT: "PKG_CONFIG_PATH=${{env.PKG_CONFIG_PATH}}"
+        PKG_CONFIG_PATH: ${{env.PKG_CONFIG_PATH}}
 
     - name: Extra installs
       # https://pytest-qt.readthedocs.io/en/latest/troubleshooting.html#github-actions-azure-pipelines-travis-ci-and-gitlab-ci-cd
diff --git a/.github/workflows/unit-tests.yml b/.github/workflows/unit-tests.yml
index 08c41a1eeb21f..dfd5272fd578f 100644
--- a/.github/workflows/unit-tests.yml
+++ b/.github/workflows/unit-tests.yml
@@ -20,6 +20,9 @@ defaults:
   run:
     shell: bash -el {0}
 
+env:
+  PKG_CONFIG_PATH: "${{env.PYTHONHOME}}/numpy/_core/lib/pkgconfig"
+
 jobs:
   ubuntu:
     runs-on: ${{ matrix.platform }}
@@ -244,10 +247,10 @@ jobs:
         run: |
           /opt/python/cp313-cp313/bin/python -m venv ~/virtualenvs/pandas-dev
           . ~/virtualenvs/pandas-dev/bin/activate
-          python -m pip install --no-cache-dir -U pip wheel setuptools meson[ninja]==1.2.1 meson-python==0.13.1
+          python -m pip install --no-cache-dir -U pip wheel setuptools meson[ninja]==1.4.0 meson-python==0.13.1
           python -m pip install numpy -Csetup-args="-Dallow-noblas=true"
           python -m pip install --no-cache-dir versioneer[toml] cython python-dateutil pytest>=7.3.2 pytest-xdist>=3.4.0 hypothesis>=6.84.0
-          python -m pip install --no-cache-dir --no-build-isolation -e . -Csetup-args="--werror"
+          python -m pip install --no-cache-dir --no-build-isolation -e .
           python -m pip list --no-cache-dir
           PANDAS_CI=1 python -m pytest -m 'not slow and not network and not clipboard and not single_cpu' pandas --junitxml=test-data.xml
     concurrency:
@@ -282,9 +285,9 @@ jobs:
         run: |
           /opt/python/cp313-cp313/bin/python -m venv ~/virtualenvs/pandas-dev
           . ~/virtualenvs/pandas-dev/bin/activate
-          python -m pip install --no-cache-dir -U pip wheel setuptools meson-python==0.13.1 meson[ninja]==1.2.1
+          python -m pip install --no-cache-dir -U pip wheel setuptools meson-python==0.13.1 meson[ninja]==1.4.0
           python -m pip install --no-cache-dir versioneer[toml] cython numpy python-dateutil pytest>=7.3.2 pytest-xdist>=3.4.0 hypothesis>=6.84.0
-          python -m pip install --no-cache-dir --no-build-isolation -e . -Csetup-args="--werror"
+          python -m pip install --no-cache-dir --no-build-isolation -e .
           python -m pip list --no-cache-dir
 
       - name: Run Tests
@@ -353,10 +356,10 @@ jobs:
       - name: Build Environment
         run: |
           python --version
-          python -m pip install --upgrade pip setuptools wheel meson[ninja]==1.2.1 meson-python==0.13.1
+          python -m pip install --upgrade pip setuptools wheel meson[ninja]==1.4.0 meson-python==0.13.1
           python -m pip install --pre --extra-index-url https://pypi.anaconda.org/scientific-python-nightly-wheels/simple numpy
           python -m pip install versioneer[toml] python-dateutil tzdata cython hypothesis>=6.84.0 pytest>=7.3.2 pytest-xdist>=3.4.0 pytest-cov
-          python -m pip install -ve . --no-build-isolation --no-index --no-deps -Csetup-args="--werror"
+          python -m pip install -ve . --no-build-isolation --no-index --no-deps
           python -m pip list
 
       - name: Run Tests
@@ -395,10 +398,10 @@ jobs:
       - name: Build Environment
         run: |
           python --version
-          python -m pip install --upgrade pip setuptools wheel numpy meson[ninja]==1.2.1 meson-python==0.13.1
+          python -m pip install --upgrade pip setuptools wheel numpy meson[ninja]==1.4.0 meson-python==0.13.1
           python -m pip install --pre --extra-index-url https://pypi.anaconda.org/scientific-python-nightly-wheels/simple cython
           python -m pip install versioneer[toml] python-dateutil pytz tzdata hypothesis>=6.84.0 pytest>=7.3.2 pytest-xdist>=3.4.0 pytest-cov
-          python -m pip install -ve . --no-build-isolation --no-index --no-deps -Csetup-args="--werror"
+          python -m pip install -ve . --no-build-isolation --no-index --no-deps
           python -m pip list
 
       - name: Run Tests
diff --git a/.github/workflows/wheels.yml b/.github/workflows/wheels.yml
index 4da2b0b84ac83..eb0aced6572f9 100644
--- a/.github/workflows/wheels.yml
+++ b/.github/workflows/wheels.yml
@@ -57,6 +57,10 @@ jobs:
         with:
           python-version: '3.11'
 
+      - name: Determine NumPy pkg-config location
+        run: |
+          echo "PKG_CONFIG_PATH=$(python -c 'import site; print(site.getsitepackages()[0])')/numpy/_core/lib/pkgconfig" >> $GITHUB_ENV
+
       - name: Build sdist
         run: |
           python -m pip install build
@@ -140,6 +144,10 @@ jobs:
         shell: bash -el {0}
         run: echo "sdist_name=$(ls ./dist)" >> "$GITHUB_ENV"
 
+      - name: Determine NumPy pkg-config location
+        run: |
+          echo "PKG_CONFIG_PATH=$(python -c 'import site; print(site.getsitepackages()[0])')/numpy/_core/lib/pkgconfig" >> $GITHUB_ENV
+
       # Python version used to build sdist doesn't matter
       # wheel will be built from sdist with the correct version
       - name: Unzip sdist (macOS)
diff --git a/ci/deps/actions-310-minimum_versions.yaml b/ci/deps/actions-310-minimum_versions.yaml
index c7c72828db481..530c5b5eef7ba 100644
--- a/ci/deps/actions-310-minimum_versions.yaml
+++ b/ci/deps/actions-310-minimum_versions.yaml
@@ -9,7 +9,7 @@ dependencies:
   # build dependencies
   - versioneer
   - cython>=0.29.33
-  - meson=1.2.1
+  - meson=1.4.0
   - meson-python=0.13.1
 
   # test dependencies
diff --git a/ci/deps/actions-310.yaml b/ci/deps/actions-310.yaml
index 74cab4e0970dc..88de56a7c388c 100644
--- a/ci/deps/actions-310.yaml
+++ b/ci/deps/actions-310.yaml
@@ -7,7 +7,7 @@ dependencies:
   # build dependencies
   - versioneer
   - cython>=0.29.33
-  - meson=1.2.1
+  - meson=1.4.0
   - meson-python=0.13.1
 
   # test dependencies
diff --git a/ci/deps/actions-311-downstream_compat.yaml b/ci/deps/actions-311-downstream_compat.yaml
index 092ca18d61259..b448fdc573893 100644
--- a/ci/deps/actions-311-downstream_compat.yaml
+++ b/ci/deps/actions-311-downstream_compat.yaml
@@ -8,7 +8,7 @@ dependencies:
   # build dependencies
   - versioneer
   - cython>=0.29.33
-  - meson=1.2.1
+  - meson=1.4.0
   - meson-python=0.13.1
 
   # test dependencies
diff --git a/ci/deps/actions-311-numpydev.yaml b/ci/deps/actions-311-numpydev.yaml
index 325a6d45d74fd..9db3d638dfe7e 100644
--- a/ci/deps/actions-311-numpydev.yaml
+++ b/ci/deps/actions-311-numpydev.yaml
@@ -6,7 +6,7 @@ dependencies:
 
   # build dependencies
   - versioneer
-  - meson=1.2.1
+  - meson=1.4.0
   - meson-python=0.13.1
   - cython>=0.29.33
 
diff --git a/ci/deps/actions-311-pyarrownightly.yaml b/ci/deps/actions-311-pyarrownightly.yaml
index 2d3d11c294e12..9ba1bb6162eb3 100644
--- a/ci/deps/actions-311-pyarrownightly.yaml
+++ b/ci/deps/actions-311-pyarrownightly.yaml
@@ -6,7 +6,7 @@ dependencies:
 
   # build dependencies
   - versioneer
-  - meson=1.2.1
+  - meson=1.4.0
   - cython>=0.29.33
   - meson-python=0.13.1
 
diff --git a/ci/deps/actions-311.yaml b/ci/deps/actions-311.yaml
index b6f515dceaea9..561e13834a273 100644
--- a/ci/deps/actions-311.yaml
+++ b/ci/deps/actions-311.yaml
@@ -7,7 +7,7 @@ dependencies:
   # build dependencies
   - versioneer
   - cython>=0.29.33
-  - meson=1.2.1
+  - meson=1.4.0
   - meson-python=0.13.1
 
   # test dependencies
diff --git a/ci/deps/actions-312.yaml b/ci/deps/actions-312.yaml
index bc66f8a5382c9..cb683765475d7 100644
--- a/ci/deps/actions-312.yaml
+++ b/ci/deps/actions-312.yaml
@@ -7,7 +7,7 @@ dependencies:
   # build dependencies
   - versioneer
   - cython>=0.29.33
-  - meson=1.2.1
+  - meson=1.4.0
   - meson-python=0.13.1
 
   # test dependencies
diff --git a/ci/deps/actions-pypy-39.yaml b/ci/deps/actions-pypy-39.yaml
index 90933b24b88db..da36cff31435d 100644
--- a/ci/deps/actions-pypy-39.yaml
+++ b/ci/deps/actions-pypy-39.yaml
@@ -10,7 +10,7 @@ dependencies:
   # build dependencies
   - versioneer
   - cython>=0.29.33
-  - meson=1.2.1
+  - meson=1.4.0
   - meson-python=0.13.1
 
   # test dependencies
diff --git a/doc/source/whatsnew/v3.0.0.rst b/doc/source/whatsnew/v3.0.0.rst
index ad086c4d636d5..780f973eed354 100644
--- a/doc/source/whatsnew/v3.0.0.rst
+++ b/doc/source/whatsnew/v3.0.0.rst
@@ -81,6 +81,7 @@ Other enhancements
 - Support passing a :class:`Iterable[Hashable]` input to :meth:`DataFrame.drop_duplicates` (:issue:`59237`)
 - Support reading Stata 102-format (Stata 1) dta files (:issue:`58978`)
 - Support reading Stata 110-format (Stata 7) dta files (:issue:`47176`)
+- Use Meson's native NumPy dependency resolution method for building (:issue:`61095`)
 
 .. ---------------------------------------------------------------------------
 .. _whatsnew_300.notable_bug_fixes:
diff --git a/environment.yml b/environment.yml
index a8c8b20e20fe4..5b421c8150021 100644
--- a/environment.yml
+++ b/environment.yml
@@ -9,7 +9,7 @@ dependencies:
   # build dependencies
   - versioneer
   - cython~=3.0.5
-  - meson=1.2.1
+  - meson=1.4.0
   - meson-python=0.13.1
 
   # test dependencies
diff --git a/meson.build b/meson.build
index 66583095a6e77..e9a76a375bc5c 100644
--- a/meson.build
+++ b/meson.build
@@ -6,7 +6,7 @@ project(
     'cython',
     version: run_command(['generate_version.py', '--print'], check: true).stdout().strip(),
     license: 'BSD-3',
-    meson_version: '>=1.2.1',
+    meson_version: '>=1.4.0',
     default_options: ['buildtype=release', 'c_std=c11', 'warning_level=2'],
 )
 
@@ -14,7 +14,7 @@ fs = import('fs')
 py = import('python').find_installation(pure: false)
 tempita = files('generate_pxi.py')
 versioneer = files('generate_version.py')
-
+numpy_dep = dependency('numpy', method: 'auto')
 
 add_project_arguments('-DNPY_NO_DEPRECATED_API=0', language: 'c')
 add_project_arguments('-DNPY_NO_DEPRECATED_API=0', language: 'cpp')
diff --git a/pandas/_libs/meson.build b/pandas/_libs/meson.build
index a50976767928a..bd036607ded6a 100644
--- a/pandas/_libs/meson.build
+++ b/pandas/_libs/meson.build
@@ -149,12 +149,17 @@ if get_option('buildtype') == 'debug'
 endif
 
 foreach ext_name, ext_dict : libs_sources
+    dependencies = [numpy_dep]
+    if ext_dict.has_key('deps')
+        dependencies += ext_dict.get('deps')
+    endif
+
     py.extension_module(
         ext_name,
         ext_dict.get('sources'),
         cython_args: cython_args,
-        include_directories: [inc_np, inc_pd],
-        dependencies: ext_dict.get('deps', ''),
+        include_directories: [inc_pd],
+        dependencies: dependencies,
         subdir: 'pandas/_libs',
         install: true,
     )
diff --git a/pandas/_libs/tslibs/meson.build b/pandas/_libs/tslibs/meson.build
index 052a8568b76af..2989ae710c3c0 100644
--- a/pandas/_libs/tslibs/meson.build
+++ b/pandas/_libs/tslibs/meson.build
@@ -29,12 +29,17 @@ if get_option('buildtype') == 'debug'
 endif
 
 foreach ext_name, ext_dict : tslibs_sources
+    dependencies = [numpy_dep]
+    if ext_dict.has_key('deps')
+        dependencies += ext_dict.get('deps')
+    endif
+
     py.extension_module(
         ext_name,
         ext_dict.get('sources'),
         cython_args: cython_args,
-        include_directories: [inc_np, inc_pd],
-        dependencies: ext_dict.get('deps', ''),
+        include_directories: [inc_pd],
+        dependencies: dependencies,
         subdir: 'pandas/_libs/tslibs',
         install: true,
     )
diff --git a/pandas/_libs/window/meson.build b/pandas/_libs/window/meson.build
index 1d49bba47e139..bb594222f520b 100644
--- a/pandas/_libs/window/meson.build
+++ b/pandas/_libs/window/meson.build
@@ -2,7 +2,8 @@ py.extension_module(
     'aggregations',
     ['aggregations.pyx'],
     cython_args: ['-X always_allow_keywords=true'],
-    include_directories: [inc_np, inc_pd],
+    include_directories: [inc_pd],
+    dependencies: [numpy_dep],
     subdir: 'pandas/_libs/window',
     override_options: ['cython_language=cpp'],
     install: true,
@@ -12,7 +13,8 @@ py.extension_module(
     'indexers',
     ['indexers.pyx'],
     cython_args: ['-X always_allow_keywords=true'],
-    include_directories: [inc_np, inc_pd],
+    include_directories: [inc_pd],
+    dependencies: [numpy_dep],
     subdir: 'pandas/_libs/window',
     install: true,
 )
diff --git a/pandas/meson.build b/pandas/meson.build
index 840ac257bba09..f18d0bd911309 100644
--- a/pandas/meson.build
+++ b/pandas/meson.build
@@ -1,24 +1,3 @@
-incdir_numpy = run_command(
-    py,
-    [
-        '-c',
-        '''
-import os
-import numpy as np
-try:
-    # Check if include directory is inside the pandas dir
-    # e.g. a venv created inside the pandas dir
-    # If so, convert it to a relative path
-    incdir = os.path.relpath(np.get_include())
-except Exception:
-    incdir = np.get_include()
-print(incdir)
-     ''',
-    ],
-    check: true,
-).stdout().strip()
-
-inc_np = include_directories(incdir_numpy)
 inc_pd = include_directories('_libs/include')
 
 fs.copyfile('__init__.py')
diff --git a/pyproject.toml b/pyproject.toml
index b7d53b0d8934a..8da6c93501f94 100644
--- a/pyproject.toml
+++ b/pyproject.toml
@@ -3,7 +3,7 @@
 # See https://github.com/scipy/scipy/pull/12940 for the AIX issue.
 requires = [
     "meson-python>=0.13.1",
-    "meson>=1.2.1,<2",
+    "meson>=1.4.0,<2",
     "wheel",
     "Cython~=3.0.5",  # Note: sync with setup.py, environment.yml and asv.conf.json
     # Force numpy higher than 2.0rc1, so that built wheels are compatible
diff --git a/requirements-dev.txt b/requirements-dev.txt
index 990901958cd9e..b386d91e5c88f 100644
--- a/requirements-dev.txt
+++ b/requirements-dev.txt
@@ -4,7 +4,7 @@
 pip
 versioneer[toml]
 cython~=3.0.5
-meson[ninja]==1.2.1
+meson[ninja]==1.4.0
 meson-python==0.13.1
 pytest>=7.3.2
 pytest-cov