Well, I made an attempt to go from this:

  networking.wg-quick.interfaces = {
    wg0 = {
      address = [
        "10.0.0.2/24"
        "fdc9:281f:04d7:9ee9::2/64"
      ];
      dns = [
        "10.0.0.1"
        "fdc9:281f:04d7:9ee9::1"
      ];
      privateKeyFile = "/root/wireguard-keys/privatekey";

      peers = [
        {
          publicKey = "key1";
          presharedKeyFile = "/root/wireguard-keys/preshared_from_peer0_key";
          allowedIPs = [
            # only route vpn related services
            #"10.0.0.0/24"
            #"fdc9:281f:04d7:9ee9::/64"
            # send everything and do NAT
            "0.0.0.0/0"
            "::/0"
          ];
          endpoint = "ip1:ip1";
          persistentKeepalive = 25;
        }
      ];
    };
    wg1 = {
      address = [
        "10.0.1.2/24"
        "fdc9:281f:04d7:9eea::2/64"
      ];
      dns = [
        "10.0.1.1"
        "fdc9:281f:04d7:9eea::1"
      ];
      privateKeyFile = "/root/wireguard-keys/privatekey_wg1";

      peers = [
        {
          publicKey = "key2";
          allowedIPs = [
            "10.0.1.0/24"
            "fdc9:281f:04d7:9eea::/64"
          ];
          endpoint = "ip2:port2";
          persistentKeepalive = 25;
        }
      ];
    };
  };

to this:

  networking.useNetworkd = true;
  systemd.network = {
    networks."10-enp5s0" = {
      matchConfig.Name = "enp5s0";
      networkConfig.DHCP = "yes";
    };
    networks."50-wg0" = {
      matchConfig.Name = "wg0";
      address = [
        "fdc9:281f:04d7:9ee9::2/64"
        "10.0.0.2/24"
      ];
      domains = [ "~." ];
      dns = [
        "10.0.0.1"
        "fdc9:281f:04d7:9ee9::1"
      ];
      #networkConfig = {
      #  DNSDefaultRoute = true;
      #};
      routingPolicyRules = [
        {
          Family = "both";
          InvertRule = true;
          FirewallMark = 94;
          Table = 1337;
          Priority = 10;
        }
        {
          To = "ip1/32"; # use /32 for IPv4
          Priority = 5;
        }
      ];
    };
    netdevs."50-wg0" = {
      netdevConfig = {
        Kind = "wireguard";
        Name = "wg0";
      };
      wireguardConfig = {
        PrivateKeyFile = "/var/lib/wireguard-keys/privatekey";
        #RouteTable = "main";
        FirewallMark = 94;
      };
      wireguardPeers = [
        {
          PublicKey = "key1";
          PresharedKeyFile = "/var/lib/wireguard-keys/preshared_from_peer0_key";
          AllowedIPs = [
            #"10.0.0.0/24"
            #"fdc9:281f:04d7:9ee9::/64"
            # send everything and do NAT
            "0.0.0.0/0"
            "::/0"
          ];
          RouteTable = 1337;
          Endpoint = "ip1:port1";
          PersistentKeepalive = 25;
        }
      ];
    };
    networks."50-wg1" = {
      matchConfig.Name = "wg1";
      address = [
        "fdc9:281f:04d7:9eea::2/64"
        "10.0.1.2/24"
      ];
      domains = [ "~." ];
      dns = [
        "10.0.1.1"
        "fdc9:281f:04d7:9eea::1"
      ];
    };
    netdevs."50-wg1" = {
      netdevConfig = {
        Kind = "wireguard";
        Name = "wg1";
      };
      wireguardConfig = {
        PrivateKeyFile = "/var/lib/wireguard-keys/privatekey_wg1";
        RouteTable = "main";
      };
      wireguardPeers = [
        {
          PublicKey = "key2";
          AllowedIPs = [
            "10.0.1.0/24"
            "fdc9:281f:04d7:9eea::/64"
          ];
          Endpoint = "ip2:port2";
          PersistentKeepalive = 25;
        }
      ];
    };
  };

and it kinda worked.