I now understand a little more about resolved configuration.
When @anon33601770 pointed me to the description within
/etc/systemd/resolved.conf, I followed the description.
It says that you should create a resolved.conf in /etc/systemd/resolved.conf.d/.
So I created it and equipped it with the standard drop-ins and my own DNS servers.
GNU nano 8.1 /etc/systemd/resolved.conf.d/resolved.conf
# This file is part of systemd.
#
# systemd is free software; you can redistribute it and/or modify it under the
# terms of the GNU Lesser General Public License as published by the Free
# Software Foundation; either version 2.1 of the License, or (at your option)
# any later version.
#
# Entries in this file show the compile time defaults. Local configuration
# should be created by either modifying this file (or a copy of it placed in
# /etc/ if the original file is shipped in /usr/), or by creating "drop-ins" in
# the /etc/systemd/resolved.conf.d/ directory. The latter is generally
# recommended. Defaults can be restored by simply deleting the main
# configuration file and all drop-ins located in /etc/.
#
# Use 'systemd-analyze cat-config systemd/resolved.conf' to display the full config.
#
# See resolved.conf(5) for details.
[Resolve]
#Some examples of DNS servers which may be used for DNS= and FallbackDNS=:
#
#DNS=
FallbackDNS=empty
#Domains=
DNSSEC=yes
DNSOverTLS=yes
#MulticastDNS=yes
#LLMNR=yes
#Cache=yes
#CacheFromLocalhost=no
#DNSStubListener=yes
#DNSStubListenerExtra=
#ReadEtcHosts=yes
#ResolveUnicastSingleLabel=no
#StaleRetentionSec=0
I also activated a special DNS there to understand which configuration file Resolved prefers when it makes a DNS query.
Because in /etc/systemd/resolved.conf.d/ I still had my upstream.conf in which I also activated [resolve].
Now I know that systemd prefers /etc/systemd/resolved.conf.d/resolved.conf over the upstream.conf or other files stored there.
This now shows us resolvectl status
$ resolvectl status ✔
Global
Protocols: +LLMNR +mDNS +DNSOverTLS DNSSEC=yes/supported
resolv.conf mode: foreign
Current DNS Server: 78.46.244.143#dot-de.blahdns.com
DNS Servers: 78.46.244.143#dot-de.blahdns.com 45.91.92.121#dot-ch.blahdns.com
185.95.218.42#dns.digitale-gesellschaft.ch 185.95.218.43#dns.digitale-gesellschaft.ch
Link 2 (enp4s0)
Current Scopes: LLMNR/IPv4 mDNS/IPv4
Protocols: -DefaultRoute +LLMNR +mDNS +DNSOverTLS DNSSEC=yes/supported
The upstream.conf is used as an additional source if [resolve] is active in it.
This brings me to the conclusion that in /etc/systemd/resolved.conf.d/ you can generally very easily create your own rules in your own files for different purposes. You can write everything in one file that you then call resolved.conf, or into multiple files without using a resolved.conf.
As long as [resolve] is enabled within the file and some rules, for example FallbackDNS=empty (overrides disabled systemd Blob FallbackDNS) or DNSOverTLS=yes, are enabled.
It also uses these to find itself.
Current DNS Server: is always what was defined in the resolved.conf.
DNS Servers: are all DNS servers from all files in which [resolve] was activated, and these are automatically used as a fallback!
Who should I tell about the solution now? Everyone helped a little. But @mithrial left the tip empty. I do it FallbackDNS=empty in my new /etc/systemd/resolved.conf.d/resolved.conf
Which was ultimately the most effective.
But @cscs showed me that you can simply write any file in there yourself. And activate it with [resolve].