Perhaps it depends on the user... for on the go file administration functions a stylus does rule. Normal mobile use, not so much. If it can't be done simply by touch maybe the app isn't ready for the device.
Ultimately the easiest way to perform administrative file functions is to SSH from a desktop if you are comfortable with a CLI. An GUI emulator for the desktop may be best for all users though.

Particularly one where the install file is small enough to be kept on the device's own memory card and could be easily transfered and run on most visited desktops.

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With the N800 I solved the stylus/admin vs touch/user problem by running two different task navigators. I keep all the admin tasks in Command Navigator and user tasks in Personal Menu.

Until I had the tablet set up to my liking, 80% of my time was spent with stylus/admin tasks... Now 80% is spent just using the dang thing.