Editing in visual mode doesn't change html

I have been having problems with the “Broken Link Checker” app, thinking that it was showing me links that I had already editing or deleted…but just figured out that the links I deleted or edited in visual mode are actually still there in html (text) mode! Whole paragraphs of stuff I deleted are still showing in the html, but not on the site! What the heck??? Why do I have all this code that is not going away or not being edited when I use visual mode? The site actually looks fine…appears to be edited…but when I’m doing this link checker I keep finding more things that are still lingering in code view even after I’ve deleted them.

Has anyone else had this happen? And if so, what’s the solution??