Mainly it's the menu and monodoc-base triggers that cause the problem. Recently monodoc base has become a major pain. It keeps saying there are a bunch of errors, and uses up 100+ CPU% and makes it impossible to do a thing. I've had to force it to stop so many times now.
I don't want to lose monodevelop, but will a reinstall work to stop the hell? I got kinda mad and went ahead and did it. Gonna see how it goes, but so far, it's improved.