I was able to fix the trust issue with 'pacman-key --populate blackarch'. Now I ran garuda-update again and I just get flooded with questions about replacing repositories. I can explain this with my system being reset about 2 months, but again: Recovering these lost files is my main goal. I am not even sure how they got lost and if upgrade here is really the best solution. I am afraid i might be overwriting something.
This is the output of garuda-update
:: Synchronizing package databases...
garuda is up to date
core is up to date
blackarch is up to date
extra is up to date
community is up to date
multilib is up to date
chaotic-aur 2047,2 KiB 3,72 MiB/s 00:01 [------------------------------------] 100%
--> Refreshing mirrorlists using reflector, please be patient..
:: Synchronizing package databases...
garuda 95,8 KiB 105 KiB/s 00:01 [------------------------------------] 100%
core 157,2 KiB 718 KiB/s 00:00 [------------------------------------] 100%
blackarch 3,7 MiB 3,20 MiB/s 00:01 [------------------------------------] 100%
extra 1747,4 KiB 2,95 MiB/s 00:01 [------------------------------------] 100%
community 7,2 MiB 5,81 MiB/s 00:01 [------------------------------------] 100%
multilib 166,6 KiB 226 KiB/s 00:01 [------------------------------------] 100%
chaotic-aur 2047,2 KiB 4,55 MiB/s 00:00 [------------------------------------] 100%
--> Applying keyring updates before starting full system update..
warning: archlinux-keyring-20221110-1 is up to date -- skipping
warning: chaotic-keyring-20220803-1 is up to date -- skipping
resolving dependencies...
looking for conflicting packages...
Packages (2) blackarch-keyring-20180925-5 garuda-hotfixes-1.1.2-1
Total Download Size: 0,02 MiB
Total Installed Size: 0,02 MiB
Net Upgrade Size: 0,00 MiB
:: Proceed with installation? [Y/n]
:: Retrieving packages...
blackarch-keyring-20180925-5-any 17,9 KiB 33,8 KiB/s 00:01 [------------------------------------] 100%
garuda-hotfixes-1.1.2-1-any 3,0 KiB 4,83 KiB/s 00:01 [------------------------------------] 100%
Total (2/2) 20,9 KiB 32,4 KiB/s 00:01 [------------------------------------] 100%
(2/2) checking keys in keyring [------------------------------------] 100%
(2/2) checking package integrity [------------------------------------] 100%
(2/2) loading package files [------------------------------------] 100%
(2/2) checking for file conflicts [------------------------------------] 100%
(2/2) checking available disk space [------------------------------------] 100%
:: Running pre-transaction hooks...
(1/1) Creating Timeshift snapshot before upgrade...
==> skipping timeshift-autosnap due SKIP_AUTOSNAP environment variable being set.
:: Processing package changes...
(1/2) upgrading garuda-hotfixes [------------------------------------] 100%
(2/2) upgrading blackarch-keyring [------------------------------------] 100%
warning: /etc/pacman.d/hooks/blackarch-key.hook installed as /etc/pacman.d/hooks/blackarch-key.hook.pacnew
==> Appending keys from blackarch.gpg...
==> Updating trust database...
gpg: next trustdb check due at 2023-01-01
:: Running post-transaction hooks...
(1/7) Reloading system manager configuration...
(2/7) Arming ConditionNeedsUpdate...
(3/7) Foreign/AUR package notification
8188eu-aircrack-dkms-git 5.3.9.r145.6146193-1
at-spi2-atk 2.38.0-1
atk 2.36.0-1
balena-etcher 2:1.7.7-1
ceph-libs 15.2.14-5
chitubox-free-bin 1.9.0-1
cht.sh-git r892.46d1a5f-1
crda 4.14-4
dxvk-bin 1.9-1
electron12 12.2.3-3
ipw2100-fw 1.3-10
ipw2200-fw 3.1-8
java8-openjfx 8.u202-4
js68 68.12.0-1
jupyter 4.6.3-3
kalarmcal 21.12.2-1
kdesdk-kioslaves 21.12.2-1
kipi-plugins 21.12.2-1
kite 2.20210607.0-1
kross-interpreters 21.08.3-1
kvantum-theme-sweet-git r245.6bb9c92-1
kwayland-server 5.24.2-1
kwrite 21.12.2-1
lib32-at-spi2-atk 2.38.0-1
lib32-atk 2.36.0-2
libkipi 21.12.2-1
libmemcached 1.0.18-4
libopenaptx 0.2.0-1
libpipewire02 0.2.7-2
linux-cacule 5.16.11-1
linux-cacule-headers 5.16.11-1
linux-tkg-muqss 5.13.18-200
linux-tkg-muqss-headers 5.13.18-200
pacaur 4.8.6-1
pikaur 1.6.17-1
plasma 922.ec7df9b-5
plasma5-theme-sweet-git r20.f7f760a-1
progsreiserfs 0.3.0.5-10
python-jaraco 2022.1.24-2
qemu 6.2.0-4
rtl8814au-aircrack-dkms-git r94.bdf80b5-1
rttr 0.9.6-3
ruby1.9 1.9.3_p448-3
samba-mounter-git 180.5ff6318-1
sdl 1:1.2.15+r406+gf1caf909-1
sweet-cursor-theme-git r245.6bb9c92-1
sweet-kde-git r245.6bb9c92-1
wxgtk-common 3.0.5.1-3
wxgtk3 3.0.5.1-3
zeroconf-ioslave 21.12.2-1
(4/7) Orphaned package notification...
celt 0.11.3-4
cht.sh-git r892.46d1a5f-1
ddcutil 1.2.2-1
elfutils 0.186-5
fontforge 20201107-3
garuda-system-maintenance 1.5.0-1
js68 68.12.0-1
kpeoplevcard 0.1-1
lib32-libnsl 2.0.0-1
libcmis 0.5.2-9
libcroco 0.6.13-2
libfakekey 0.3-2
libofa 0.9.3-9
libopenaptx 0.2.0-1
libpipewire02 0.2.7-2
libsecp256k1 20211017+1410+g9526874-2
libxvmc 1.0.12-3
memavaild 0.6-1
mlt6 6.26.1-9
nohang 0.2.0-1
prelockd 0.9-1
python-aiohttp-socks 0.7.1-3
python-aiorpcx 0.18.7-3
python-bitstring 3.1.9-3
python-ecdsa 0.17.0-3
python-pbkdf2 1.3-10
python-pyaes 1.6.1-9
python-systemd 234-11
python-sysv_ipc 1.1.0-2
python-yg.lockfile 2.3-3
python2-scapy 2.4.3-3
rebuild-detector 4.4.1-2
rttr 0.9.6-3
ruby1.9 1.9.3_p448-3
uresourced 0.5.1-1
zita-alsa-pcmi 0.4.0-1
zita-resampler 1.8.0-1
(5/7) Checking for .pacnew and .pacsave files...
.pac* files found:
/etc/pacman.d/hooks/blackarch-key.hook.pacnew
/etc/pacman.d/blackarch-mirrorlist.pacnew
/etc/nsswitch.conf.pacnew
/etc/locale.gen.pacnew
/etc/default/grub.pacnew
/etc/default/grub-btrfs/config.pacnew
/etc/pamac.conf.pacnew
/etc/create_ap.conf.pacnew
/etc/pacman.conf.pacnew
/etc/pacman.d/mirrorlist.pacnew
/etc/paru.conf.pacnew
/etc/pulse/daemon.conf.pacnew
/etc/sudoers.pacnew
/etc/systemd/system.conf.pacnew
/etc/systemd/user.conf.pacnew
Please check and merge
(6/7) Checking which packages need to be rebuilt
foreign pikaur
foreign plasma
(7/7) Syncing all file systems...
spawn pacman -Su sweet-theme-full-git --ignore sweet-kde-git,sweet-cursor-theme-git,kvantum-theme-sweet-git,sweet-gtk-theme-dark,plasma5-theme-sweet-git --asdeps
:: Starting full system upgrade...
:: Replace ananicy-rules-git with chaotic-aur/ananicy-rules? [Y/n] y
:: Replace android-tools with blackarch/android-sdk-platform-tools? [Y/n] y
:: Replace at-spi2-atk with extra/at-spi2-core? [Y/n] y
:: Replace atk with extra/at-spi2-core? [Y/n] y
:: Replace crda with core/wireless-regdb? [Y/n] y
:: Replace kdesdk-kioslaves with extra/kdesdk-kio? [Y/n] y
:: Replace kwayland-server with extra/kwin? [Y/n] y
:: Replace kwrite with extra/kate? [Y/n] y
:: Replace lib32-at-spi2-atk with multilib/lib32-at-spi2-core? [Y/n] y
:: Replace lib32-atk with multilib/lib32-at-spi2-core? [Y/n] y
:: Replace libmemcached with community/libmemcached-awesome? [Y/n] y
warning: mkinitcpio-openswap: local (0.1.0-3) is newer than blackarch (0.1.0-1)
warning: ncurses5-compat-libs: local (6.3-1) is newer than blackarch (6.1-3)
warning: python-backcall: local (0.2.0-6) is newer than blackarch (0.2.0-4)
warning: python-bitstring: local (3.1.9-3) is newer than blackarch (3.1.9-2)
:: Replace python-jaraco with community/python-jaraco.classes? [Y/n] y
:: Replace python-jaraco with community/python-jaraco.collections? [Y/n] y
:: Replace python-jaraco with community/python-jaraco.functools? [Y/n] y
:: Replace python-jaraco with community/python-jaraco.itertools? [Y/n] y
:: Replace python-jaraco with community/python-jaraco.logging? [Y/n] y
:: Replace python-jaraco with community/python-jaraco.stream? [Y/n] y
:: Replace python-jaraco with community/python-jaraco.text? [Y/n] y
warning: python-minidump: local (1:0.0.21-2) is newer than community (0.0.21-2)
warning: python-pyee: local (9.0.3-1) is newer than blackarch (8.2.2-2)
warning: python-sip-pyqt4: local (4.19.25-1) is newer than blackarch (4.19.24-2)
:: Replace qemu with extra/qemu-desktop? [Y/n] y
warning: qt4: local (4.8.7-35) is newer than blackarch (4.8.7-30)
:: Replace reaver with blackarch/reaver-wps-fork-t6x? [Y/n] y
warning: rtkit: local (0.13-1) is newer than blackarch (0.11-4)
warning: sbc: local (1.5-2) is newer than blackarch (1.2-1)
:: Replace sdl with community/sdl12-compat? [Y/n] y
warning: sslsplit: local (0.5.5-1) is newer than blackarch (0.5.2-1)
:: Replace wxgtk-common with extra/wxwidgets-common? [Y/n] y
:: Replace wxgtk3 with extra/wxwidgets-gtk3? [Y/n] y
:: Replace zeroconf-ioslave with extra/kio-zeroconf? [Y/n] y
resolving dependencies...
looking for conflicting packages...
:: sweet-theme-full-git and sweet-kde-git are in conflict (sweet-kde). Remove sweet-kde-git? [y/N] y
:: sweet-theme-full-git and sweet-cursor-theme-git are in conflict. Remove sweet-cursor-theme-git? [y/N] y
:: sweet-theme-full-git and kvantum-theme-sweet-git are in conflict. Remove kvantum-theme-sweet-git? [y/N] y
:: sweet-theme-full-git and sweet-gtk-theme-dark are in conflict. Remove sweet-gtk-theme-dark? [y/N] y
:: sweet-theme-full-git and plasma5-theme-sweet-git are in conflict. Remove plasma5-theme-sweet-git? [y/N] y
:: garuda-common-settings and ipw2100-fw are in conflict. Remove ipw2100-fw? [y/N] y
:: garuda-common-settings and ipw2200-fw are in conflict. Remove ipw2200-fw? [y/N] y
:: python-mistune and python-mistune1 are in conflict. Remove python-mistune1? [y/N] y
y
error: failed to prepare transaction (could not satisfy dependencies)
:: removing python-mistune1 breaks dependency 'python-mistune1' required by jupyter