Lock saved URLs

I really fell in love with this tool.  Paid for full version first day.  However, for what I do it is not working how I expected.  I need to be able to save websites and not have them ever change.  Even if in the same window I follow my research idea.  I thought that is how this was designed to work but I can not find any setting that needs to be changed.  I also don't want to go to tool just to close open window so I dont lose saved link from a month ago.  Lost several this way before I realized this was not working right.