Ok,
Here's another todo for Linux I am willing to solve, along with drag and drop and better desktop integration: hidden folders in the file browser.
PD defaults to the home folder of the current user, which is full of hidden folders (.foldername) which are naturally listed fist. This means that every time I go to open or save something I have to scroll the little browser window past these (non-)hidden folders to my visible folders. Yeah, I know, its a small thing, but I always find it annoying. This is something that other applications which use the GTK-gnome file browser handle and hitting Ctrl-H toggles hidden file display.
I don't have a huge signal processing background, so I'll try and help in my own way :P.