I made some additional improvements, you can download the latest build from within FlashFXP via the main menu under Help > Check for new version.
The main improvement is that if you enter an invalid regex syntax the field background color turns light red and I added an Apply button to the filter box so that you can apply the changes without closing the dialog.
I also changed the regex to ignore case by default.
I think you might be right about the File Associations, for now I have held off on implementing regex for this.
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