I meant to tell you that I went back to the site yesterday, having made no changes, and it was back up in the middle of the page.

It seems to be something that comes and goes. This morning, after you have disabled everything, it is back on the bottom again and I have made no changes.

So then I tested a bit more and found that it appears to work correctly on every page except the home page. And this is with everything disabled. Then it started working again and even as I enabled plugins it continued to work.

Now everything is activated and it is still working. Is there any way to just change how the search works and not use the pop up?