Though i'm a Logic 9 user and I've never used Pro Tools (but do have M-Audio equipment), I just compiled this list from searching online:
PRO TOOLS
1) Ties you into their hardware only.
2) Seems to charge extra for the simple things like MP3 export ability, OEM export ability, etc....
3) Runs on Windows and Mac.
4) The Metering is pre-fader. (Not good)
5) More steps to set up a 'reverb bus' (Not Good)
6) Bounces to disk in real time converts in real time (Not Good)
7) Not as simple and easy to use as Logic
8) Is looked at as an industry standard.
9) Pro tools offers certifications. They have different rankings. Usually the classes start out at roughly $1000 but to completely learn pro tools gets up to $10,000.
LOGIC
1) Mac usage only.
2) Has at no additional costs some of the best plug ins and effects (none of which require activation or registration).
3) Is controlled by Apple so updates are easier to download and be more stable.
4) No need for a dongle.
5) Can handle midi better than protools.
6) Requires 50+Gb HD space for all samples and libraries but can be installed on an external HD
7) Apple offers 1 year memberships for $99. You go in once a week for an hour and learn logic face to face with an expert.
here is some more info on this topic from this forum...
http://www.mac-forums.com/forums/os-x-applications-games/155731-logic-pro-vs-pro-tools.html