Hi Axel! How are you?
I talk with some co-workers and among the options that come to mind, one would be to use an ignore like this:
<ignore type="sregex">~</ignore>
However, this would cover more cases than you probably want. The issue is that you can't add more complexity to it.
Another option is to try to silence unwanted alerts through rules. If you create child rules for the events generated by syscheck, you could use a more useful regex and set their level to 0.
If you have any further questions or need additional assistance with your Wazuh configuration, please feel free to ask.
Nice day! =)