diff --git a/science/py-nibabel/Makefile b/science/py-nibabel/Makefile
index c247da2a8b83..ddbb62d054f8 100644
--- a/science/py-nibabel/Makefile
+++ b/science/py-nibabel/Makefile
@@ -1,42 +1,40 @@
 PORTNAME=	nibabel
-DISTVERSION=	5.3.2
-PORTREVISION=	2
+DISTVERSION=	5.4.2
 CATEGORIES=	science python
 MASTER_SITES=	PYPI
 PKGNAMEPREFIX=	${PYTHON_PKGNAMEPREFIX}
 
 MAINTAINER=	yuri@FreeBSD.org
 COMMENT=	Read/write some common neuroimaging file formats
 WWW=		https://nipy.org/nibabel/
 
 LICENSE=	MIT
 LICENSE_FILE=	${WRKSRC}/COPYING
 
 BUILD_DEPENDS=	${PYTHON_PKGNAMEPREFIX}hatch-vcs>0:devel/py-hatch-vcs@${PY_FLAVOR} \
 		${PYTHON_PKGNAMEPREFIX}hatchling>0:devel/py-hatchling@${PY_FLAVOR}
-RUN_DEPENDS=	${PYTHON_PKGNAMEPREFIX}numpy>=1.16:math/py-numpy@${PY_FLAVOR} \
+RUN_DEPENDS=	${PYTHON_PKGNAMEPREFIX}numpy>=1.25:math/py-numpy@${PY_FLAVOR} \
 		${PYTHON_PKGNAMEPREFIX}packaging>=17:devel/py-packaging@${PY_FLAVOR}
-py311_RUN_DEPENDS=	${PYTHON_PKGNAMEPREFIX}importlib-resources>=1.1.0:devel/py-importlib-resources@${PY_FLAVOR} \
-			${PYTHON_PKGNAMEPREFIX}typing-extensions>=4.6:devel/py-typing-extensions@${PY_FLAVOR}
+py311_RUN_DEPENDS=	${PYTHON_PKGNAMEPREFIX}importlib-resources>=5.12:devel/py-importlib-resources@${PY_FLAVOR}
 py312_RUN_DEPENDS=	${PYTHON_PKGNAMEPREFIX}typing-extensions>=4.6:devel/py-typing-extensions@${PY_FLAVOR}
 TEST_DEPENDS=	${PYTHON_PKGNAMEPREFIX}pytest-cov>0:devel/py-pytest-cov@${PY_FLAVOR} \
 		${PYTHON_PKGNAMEPREFIX}pytest-doctestplus>0:devel/py-pytest-doctestplus@${PY_FLAVOR} \
 		${PYTHON_PKGNAMEPREFIX}pytest-httpserver>0:devel/py-pytest-httpserver@${PY_FLAVOR} \
 		${PYTHON_PKGNAMEPREFIX}pytest-xdist>0:devel/py-pytest-xdist@${PY_FLAVOR}
 TEST_DEPENDS+=	${PYTHON_PKGNAMEPREFIX}pydicom>0:science/py-pydicom@${PY_FLAVOR}
 
 USES=		python
 USE_PYTHON=	pep517 concurrent autoplist pytest # 2 test fail, 1 error, see https://github.com/nipy/nibabel/issues/1386
 
 NO_ARCH=	yes
 
 TEST_ENV=	${MAKE_ENV} PATH=${STAGEDIR}${PREFIX}/bin
 
 post-install:
 	@${REINPLACE_CMD} -i '' -e 's|#!python|#!${PYTHON_CMD}|' \
 		${STAGEDIR}${PYTHONPREFIX_SITELIBDIR}/nibabel/cmdline/diff.py  \
 		${STAGEDIR}${PYTHONPREFIX_SITELIBDIR}/nibabel/cmdline/ls.py 
 
-# tests as of 5.3.2: 2 failed, 5414 passed, 50 skipped, 37 xfailed, 5 xpassed, 500 warnings, 1 error in 318.54s (0:05:18)
+# tests as of 5.4.2: 5905 passed, 48 skipped, 37 xfailed, 7 xpassed, 27004 warnings in 64.30s (0:01:04)
 
 .include <bsd.port.mk>
diff --git a/science/py-nibabel/distinfo b/science/py-nibabel/distinfo
index 0a48945c51b0..5767f13f8589 100644
--- a/science/py-nibabel/distinfo
+++ b/science/py-nibabel/distinfo
@@ -1,3 +1,3 @@
-TIMESTAMP = 1731827547
-SHA256 (nibabel-5.3.2.tar.gz) = 0bdca6503b1c784b446c745a4542367de7756cfba0d72143b91f9ffb78be569b
-SIZE (nibabel-5.3.2.tar.gz) = 4504842
+TIMESTAMP = 1780068709
+SHA256 (nibabel-5.4.2.tar.gz) = d5f4b9076a13178ae7f7acf18c8dbd503ee1c4d5c0c23b85df7be87efcbb49da
+SIZE (nibabel-5.4.2.tar.gz) = 4663132