I believe I used to have the ability to rearrange the search categories shown in Spotlight, but I can't drag to rearrange within System Preferences > Spotlight anymore (El Capitan). Is there some other way to do this?
Apple removed this feature in El Capitan. I searched deeper in spotlight's plist file:
But I can't find any way to re order the entries in this version of OS X.
I had the same problem. Try to just turn off spotlight suggestions. For me, PDF comes right to the top, followed by my other docs, which is just how I want it.