it sounds like the paths to the css and images may not have updated...
If you move, for example, temp.css from folder a to folder b
In folder a the path would have looked something like this:
<link rel="stylesheet" type="text/css" href="a/temp.css" />
once you move it to folder 'b' you need to change the path
<link rel="stylesheet" type="text/css" href="b/temp.css" />
If you start out with the css in the root of the public folder (ie like this <link rel="stylesheet" type="text/css" href="temp.css" />) and you move it into a folder then you need to add the folder path in ahead of the temp.css (ie b/temp.css)
Hope that makes sense and helps you...
Jamie