I've been using MSI Afterburner on Windows 11, too, and I have noticed some hiccups as well. From my experience and what I've gathered from other users, it seems that there are a few compatibility quirks with the current version of Windows 11.
First, make sure you're running MSI Afterburner with administrative privileges. Sometimes running the application as an administrator can help it apply settings more reliably. Right-click the MSI Afterburner shortcut and select "Run as administrator" to see if that resolves some of the issues.
Another thing you might want to try is checking if there are any updates for your BIOS or UEFI firmware. Some users have reported that updating their system firmware helped stabilize MSI Afterburner and other performance-tuning software.
There's also a possibility that some utilities or features included with Windows 11, like hardware-accelerated GPU scheduling, might interfere with MSI Afterburner's functionality. You could try disabling such features temporarily to see if it makes any difference.
I also recommend checking out the MSI Afterburner community forums or Reddit threads, as there are often users who share unofficial patches or tips that address these issues. Keep in mind, though, some solutions may involve beta software or workarounds that aren't officially sanctioned by MSI, so proceed with caution.
Out of curiosity, what specific GPU are you working with? Sometimes the problems can be more particular to certain GPU models or brands, and knowing your setup might help pinpoint more specific advice.