diff --git a/biology/fastp/Makefile b/biology/fastp/Makefile
index 5d6f8cb6c9fa..7af865fb935a 100644
--- a/biology/fastp/Makefile
+++ b/biology/fastp/Makefile
@@ -1,27 +1,27 @@
 PORTNAME=		fastp
 DISTVERSIONPREFIX=	v
-DISTVERSION=		0.24.0
+DISTVERSION=		0.24.1
 CATEGORIES=		biology
 
 MAINTAINER=	jwb@FreeBSD.org
 COMMENT=	Ultra-fast all-in-one FASTQ preprocessor
 WWW=		https://github.com/OpenGene/fastp
 
 LICENSE=	MIT
 LICENSE_FILE=	${WRKSRC}/LICENSE
 
 LIB_DEPENDS=	libdeflate.so:archivers/libdeflate \
 		libisal.so:devel/isa-l
 
 USES=		gmake localbase:ldflags
 USE_GITHUB=	yes
 
 GH_ACCOUNT=	OpenGene
 
 ALL_TARGET=	fastp
 PLIST_FILES=	bin/fastp
 
 post-install:
 	${STRIP_CMD} ${STAGEDIR}${PREFIX}/bin/fastp
 
 .include <bsd.port.mk>
diff --git a/biology/fastp/distinfo b/biology/fastp/distinfo
index 4326e6876f20..d33c3c0986a6 100644
--- a/biology/fastp/distinfo
+++ b/biology/fastp/distinfo
@@ -1,3 +1,3 @@
-TIMESTAMP = 1731759959
-SHA256 (OpenGene-fastp-v0.24.0_GH0.tar.gz) = 42445973c57be9209c753027e99781261c69381013813c576ad447e413ff3d04
-SIZE (OpenGene-fastp-v0.24.0_GH0.tar.gz) = 164236
+TIMESTAMP = 1744893121
+SHA256 (OpenGene-fastp-v0.24.1_GH0.tar.gz) = dd8a1b7e0410a800f80939e4d14b116e90bbec83ef7294a5f13fdaaba3fcc719
+SIZE (OpenGene-fastp-v0.24.1_GH0.tar.gz) = 164307
diff --git a/biology/fastp/files/patch-Makefile b/biology/fastp/files/patch-Makefile
index da927edbe011..5e68e39804a1 100644
--- a/biology/fastp/files/patch-Makefile
+++ b/biology/fastp/files/patch-Makefile
@@ -1,57 +1,50 @@
---- Makefile.orig	2021-10-19 02:19:29 UTC
+--- Makefile.orig	2025-04-16 10:13:35 UTC
 +++ Makefile
-@@ -2,11 +2,13 @@ DIR_INC := ./inc
- DIR_SRC := ./src
- DIR_OBJ := ./obj
- 
--PREFIX ?= /usr/local
--BINDIR ?= $(PREFIX)/bin
--INCLUDE_DIRS ?=
--LIBRARY_DIRS ?=
-+PREFIX	?= /usr/local
-+BINDIR	?= $(PREFIX)/bin
-+INCLUDE_DIRS	?=
-+LIBRARY_DIRS	?=
+@@ -7,6 +7,8 @@ LIBRARY_DIRS ?=
+ INCLUDE_DIRS ?=
+ LIBRARY_DIRS ?=
  
 +STRIP	?= strip
 +
  SRC := $(wildcard ${DIR_SRC}/*.cpp)
  OBJ := $(patsubst %.cpp,${DIR_OBJ}/%.o,$(notdir ${SRC}))
  
-@@ -15,15 +17,19 @@ TARGET := fastp
+@@ -15,15 +17,20 @@ CXX ?= g++
  BIN_TARGET := ${TARGET}
  
  CXX ?= g++
--CXXFLAGS := -std=c++11 -pthread -g -O3 -I${DIR_INC} $(foreach includedir,$(INCLUDE_DIRS),-I$(includedir)) ${CXXFLAGS}
+-CXXFLAGS := -std=c++11 -pthread -g -O3 -MD -MP -I${DIR_INC} $(foreach includedir,$(INCLUDE_DIRS),-I$(includedir)) ${CXXFLAGS}
 +# Optional flags that the user can override by setting CXXFLAGS in the
 +# env or make argument
 +CXXFLAGS ?= -g -O3
 +# Required flags
 +CXXFLAGS += -std=c++11 -I${DIR_INC} $(foreach includedir,$(INCLUDE_DIRS),-I$(includedir))
  LIBS := -lisal -ldeflate -lpthread
  STATIC_FLAGS := -static -Wl,--no-as-needed -pthread
 -LD_FLAGS := $(foreach librarydir,$(LIBRARY_DIRS),-L$(librarydir)) $(LIBS) $(LD_FLAGS)
 +# Append required flags to standard LDFLAGS from env
 +LDFLAGS += $(foreach librarydir,$(LIBRARY_DIRS),-L$(librarydir)) $(LIBS)
  STATIC_LD_FLAGS := $(foreach librarydir,$(LIBRARY_DIRS),-L$(librarydir)) $(STATIC_FLAGS) $(LIBS) $(STATIC_LD_FLAGS)
  
--
+ 
  ${BIN_TARGET}:${OBJ}
 -	$(CXX) $(OBJ) -o $@ $(LD_FLAGS)
 +	$(CXX) $(OBJ) -o $@ $(LDFLAGS)
  
  static:${OBJ}
  	$(CXX) $(OBJ) -o ${BIN_TARGET} $(STATIC_LD_FLAGS)
-@@ -49,6 +55,11 @@ make_obj_dir:
- 		mkdir $(DIR_OBJ) ; \
- 	fi
+@@ -38,8 +45,13 @@ clean:
+ 	@rm -rf $(DIR_OBJ)
+ 	@rm -f $(TARGET)
  
 +# Respect DESTDIR for staged installs (used by most package managers)
  install:
 -	install $(TARGET) $(BINDIR)/$(TARGET)
 +	install $(TARGET) $(DESTDIR)$(BINDIR)/$(TARGET)
  	@echo "Installed."
 +
 +# Many package managers use install-strip target if debugging is not enabled
 +install-strip: install
 +	$(STRIP) $(DESTDIR)$(BINDIR)/$(TARGET)
+ 
+ -include $(OBJ:.o=.d)