Malwarebytes automatically downgrades to the free version after 14 days, if you choose not to purchase it. Part of what that means, is that Malwarebytes does not run, and does not use system resources - unless YOU run the app. So, in normal use, the app just sits there, and does nothing until you run the app (and run a scan as a check of your system)
I expect that, even if you leave Malwarebytes installed, you will not likely notice any difference in performance.
Your present return to good performance is because Malwarebytes did its job, and removed whatever malware that it found.
You may have noticed that somewhere in the "quarantined" files would have been the remnants of the BeeAware files.
The
only reason I might keep anything in the "quarantined" folder would be simple curiosity. But, you also shouldn't actually do anything that might cause any of those quarantined files to inadvertantly open (and reinstall themselves). Deleting anything that appears in that folder is the best step. Good job!
Wait a week or two, and run Malwarebytes again. (If malware has found you once, it's likely the same, or other malware will find you again.)