Ben is right, there is a couple of issues between 1.8 and 1.9, and most fo those were centred around the plugins - if I remember rightly. So, if I also remember you can backup courses in 1.8 the same way you can in 1.9, that is in sections.
What you may be able to do is to backup course files, WITHOUT site files, roles and User files. If this is correct, then do that first. Restore them to 1.9, and you should be able to do so with a minimum of fuss. Quizzes caused the most angst from memory, but there were a number of discussions about those issues in the Quiz forum that you may want to read.
Then backup Users and User data, and STUDENT ROLES WITHOUT course files, other roles and site files. Restore them, if you need to. You may be able to restore students without their data, if you want to do it that way, but I cannot remember what functionality is available to you in 1.8... too long ago and not sufficiently well learned to remember much at all before going to 1.9...
That is, I suggest, the safest way of doing things, one bit at a time. I know a little time consuming, but safer. If worse comes to worse, you can unzip the files and edit the moodle.xml file to remove anything you do not want in it, rezip them and restore the modified files. There is a lot of xml data in the file that you do not really need to successfully restore courses.
If you restore and get a block error, for example, look for the block in the unzipped xml file, delete it and rezip, upload and continue. You may have to remove all references to non-core blocks and some users, Admin user in particular, but it can work.