Check your specific categories and make sure you haven't changed the option in any of them. If that's not it, please submit a support ticket so I can have a look.
Even though, I had made changes to file size in "edit fie types" - one of my image categories was still shwoing old limits. I went to "edit categories" made the changes and that fixed it.
I was under the impression that once changes were made for edit filetypes that was all I needed to do.
The limits listed in your 'Edit Filetypes' link are like your global settings. However, if you have modified the limits in a specific category then those global settings are not going to affect that category. If you want that category to start going by your global settings again just click the 'Use Default' checkbox by each extension in that category and then save the category.