diff --git a/dev-lang/swi-prolog/Manifest b/dev-lang/swi-prolog/Manifest
index a35cc77b7cf1b..69f0fc2293d0a 100644
--- a/dev-lang/swi-prolog/Manifest
+++ b/dev-lang/swi-prolog/Manifest
@@ -1,3 +1,2 @@
 DIST swipl-10.0.0.tar.gz 12792426 BLAKE2B b8c05f517d5f5963ef7fd2f1a1103f03226a803b3f641db5e224032b0e03e53ef8aeaf8defd1a243a2e3ec0a2121658d224cf0be10f44f3c2783f845ad2ce3a0 SHA512 810488ad9ec9fc926d7b5a515e7c2556f36e63e9437f729d21b66e86a4afe8e9c9fdad7651d0dbac458479ad527c58350b3e1ec4048727949e8710f7a1bcf8c2
 DIST swipl-10.0.1.tar.gz 12812508 BLAKE2B c6daa8e1015278b58ba5afb16c5d5a0680086163ebc7ad91230e0a282bf8edead5b5960246fa2b8c3ebdcd643fa126903965778028e96ef705e019abe9d70f8b SHA512 92d12cbbc9f165ecaa8b62a3f21b722d46c3c634ac3bdc8f32099b02fd2a7a0895092d66cc1e98fdb0d54f18391e25478ab03f178be6d21940a72b2ec58eabfc
-DIST swipl-9.3.28.tar.gz 12352281 BLAKE2B c5f1a829fdbf21166ed30b5f415ea3233d95c70b899fa0b866ec82fa35134a43e3a901af3a3689be771128ee31e638251aba49a4f1ec1d5e8fece54d8279d1a5 SHA512 126b579267195a817f3d151b69d9513da535bb4d071ab6dfafa94da444f674bc3d6fe781f7399e804528cece6c1237dac02021c0e8f1292e4a4181e2095668fa
diff --git a/dev-lang/swi-prolog/swi-prolog-9.3.28.ebuild b/dev-lang/swi-prolog/swi-prolog-9.3.28.ebuild
deleted file mode 100644
index ed0b4693fd5ef..0000000000000
--- a/dev-lang/swi-prolog/swi-prolog-9.3.28.ebuild
+++ /dev/null
@@ -1,198 +0,0 @@
-# Copyright 1999-2025 Gentoo Authors
-# Distributed under the terms of the GNU General Public License v2
-
-EAPI=8
-
-REAL_PN="swipl"
-REAL_P="${REAL_PN}-${PV}"
-
-inherit cmake desktop flag-o-matic java-pkg-opt-2 toolchain-funcs xdg
-
-DESCRIPTION="Versatile implementation of the Prolog programming language"
-HOMEPAGE="https://www.swi-prolog.org/
-	https://github.com/SWI-Prolog/swipl-devel/"
-
-if [[ "${PV}" == *9999* ]] ; then
-	inherit git-r3
-
-	EGIT_REPO_URI="https://github.com/SWI-Prolog/swipl-devel"
-else
-	SRC_URI="https://www.swi-prolog.org/download/devel/src/${REAL_P}.tar.gz"
-	S="${WORKDIR}/${REAL_P}"
-
-	KEYWORDS="amd64 ~ppc ~x86"
-fi
-
-LICENSE="BSD-2"
-SLOT="0"
-IUSE="archive berkdb +cli debug doc +gmp gui +ipc java minimal odbc pcre pgo ssl test yaml"
-RESTRICT="!test? ( test )"
-
-# See "cmake/PackageSelection.cmake" and "cmake/DocDepends.cmake" in pkg source.
-REQUIRED_USE="
-	doc? ( archive )
-	minimal? ( !archive !doc !ipc !ssl !test )
-"
-
-COMMON_DEPEND="
-	sys-libs/ncurses:=
-	virtual/zlib:=
-	virtual/libcrypt:=
-	!minimal? (
-		dev-libs/ossp-uuid
-	)
-	archive? (
-		app-arch/libarchive:=
-	)
-	berkdb? (
-		>=sys-libs/db-4:=
-	)
-	cli? (
-		dev-libs/libedit
-	)
-	gmp? (
-		dev-libs/gmp:0=
-	)
-	gui? (
-		 dev-libs/glib:2
-		 media-libs/sdl3-image
-		 x11-libs/pango
-	)
-	odbc? (
-		dev-db/unixODBC
-	)
-	pcre? (
-		dev-libs/libpcre
-	)
-	ssl? (
-		dev-libs/openssl:0=
-	)
-	yaml? (
-		dev-libs/libyaml
-	)
-"
-RDEPEND="
-	${COMMON_DEPEND}
-	java? (
-		>=virtual/jre-1.8:*
-	)
-"
-DEPEND="
-	${COMMON_DEPEND}
-	java? (
-		>=virtual/jdk-1.8:*
-	)
-"
-BDEPEND="
-	virtual/pkgconfig
-	test? (
-		java? (
-			dev-java/junit:4
-		)
-	)
-"
-
-pkg_setup() {
-	java-pkg-opt-2_pkg_setup
-}
-
-src_prepare() {
-	sed -e "s|\(SWIPL_INSTALL_PREFIX\)   lib/.*)|\1   $(get_libdir)/swipl)|" \
-		-e "s|\(SWIPL_INSTALL_CMAKE_CONFIG_DIR\) lib/|\1   $(get_libdir)/|" \
-		-i CMakeLists.txt \
-		|| die
-
-	sed -e "s/ -Werror//g" \
-		-i cmake/GCCBuiltins.cmake \
-		-i cmake/Config.cmake \
-		-i packages/ssl/CMakeLists.txt \
-		|| die
-
-	local ncurses_lib_flags=$($(tc-getPKG_CONFIG) --libs ncurses)
-	sed -e "/project(SWI-Prolog)/a set(CMAKE_REQUIRED_LIBRARIES \${CMAKE_REQUIRED_LIBRARIES} ${ncurses_lib_flags})" \
-		-i  CMakeLists.txt \
-		|| die
-	sed -e "s:\${CURSES_LIBRARIES}:${ncurses_lib_flags}:" \
-		-i src/CMakeLists.txt \
-		|| die
-
-	java-pkg-opt-2_src_prepare
-	cmake_src_prepare
-}
-
-src_configure() {
-	export XDG_CONFIG_DIRS="${HOME}"
-	export XDG_DATA_DIRS="${HOME}"
-
-	# Lots of UB, see https://gcc.gnu.org/PR113521
-	filter-lto
-	append-flags -fno-strict-aliasing
-
-	if use debug ; then
-		append-flags -DO_DEBUG
-	fi
-
-	if use pgo ; then
-		CMAKE_BUILD_TYPE="PGO"
-		append-flags -Wno-error=coverage-mismatch
-	fi
-
-	local -a mycmakeargs=(
-		-DBUILD_TESTING=$(usex test)
-
-		-DSWIPL_INSTALL_PREFIX="$(get_libdir)/swipl"
-		-DINSTALL_DOCUMENTATION=$(usex doc)
-
-		-DUSE_GMP=$(usex gmp)
-		-DUSE_TCMALLOC="OFF"
-		-DSWIPL_PACKAGES_BASIC=$(usex !minimal)
-
-		-DSWIPL_PACKAGES_ARCHIVE=$(usex archive)
-		-DSWIPL_PACKAGES_BDB=$(usex berkdb)
-		-DSWIPL_PACKAGES_GUI=$(usex gui)
-		-DSWIPL_PACKAGES_JAVA=$(usex java)
-		-DSWIPL_PACKAGES_ODBC=$(usex odbc)
-		-DSWIPL_PACKAGES_PCRE=$(usex pcre)
-		-DSWIPL_PACKAGES_SSL=$(usex ssl)
-		-DSWIPL_PACKAGES_TERM=$(usex cli)
-		-DSWIPL_PACKAGES_TIPC=$(usex ipc)
-		-DSWIPL_PACKAGES_YAML=$(usex yaml)
-	)
-
-	if use test && use java ; then
-		mycmakeargs+=(
-			-DJUNIT_JAR="${ESYSROOT}/usr/share/junit-4/lib/junit.jar"
-		)
-	fi
-
-	cmake_src_configure
-}
-
-src_install() {
-	cmake_src_install
-
-	if use gui ; then
-		doicon "${S}/snap/gui/swipl.png"
-		make_desktop_entry "swipl-win" "SWI-Prolog" "swipl" "Development"
-	fi
-}
-
-pkg_preinst() {
-	java-pkg-opt-2_pkg_preinst
-
-	if use gui ; then
-		xdg_pkg_preinst
-	fi
-}
-
-pkg_postinst() {
-	if use gui ; then
-		xdg_pkg_postinst
-	fi
-}
-
-pkg_postrm() {
-	if use gui ; then
-		xdg_pkg_postrm
-	fi
-}