It doesn't matter where you place the files, what matters is how the HTML pages reference the file. So if your images are located in the images folder, then the path should be
So you need to check the paths and make sure they are correct based on where the files are stored. If every file is in the same folder then your links will simply by <a href="file.html">. But if they are in different folders, the path need to be correct. This tutorial may help.