Here is some info off of ITP Diesel, LLC Autoenginuity page:
For 99-03 7.3L, another way to use AutoEnginuity to see if there are problems with a particular cylinder is to monitor the "Cylinder x Change Rotational Vel" or "Percentage of Crank Deceleration" PID (also commonly called PERDEL). This PID exists for all 8 cylinders and is a representation of crankshaft velocity change (decrease) at the time the cylinder is firing. Ideally, these should all read 0%. Any cylinder consistently reading more than 3-5% change in rotational velocity is suspect and should be further examined. Note: Engine should be fully warmed up before checking PERDEL data.
On the truck that read 0.0....was the oil temperature up to operating temp? I know it will read 0.00 until the oil temp gets to around 135 degrees or so.
What numbers are you getting for PERDELS on each cylinder? Under 5% is usually ok from what I have read. and the new recall CPS usually throws a few cylinders higher than that.
As far as the running rough, have you changed the oil in the last 3-5k miles? These engines need clean oil and more than a few times I have taled to people that changed the oil and the truck starting acting "normal" again.
__________________
Ken
2002 F-350 CCLB 4X4, HD4R100 , Riffraff FRx, Riffraff CAC Boots & PRI's, Bellowed Up-Pipes, 4" Diamond Eye exhaust, Powerslot rotors, ATS Ported Compressor Housing, DP Tuner-F6, Autoenginuity, EEC-V Breakout Box, KCM S.S. HPX Line, S&B Filters intake, Quad Autometer gauge pod, Inovations canopy, Banks Big Head wastegate actuator, 6.0L Trans Cooler, Spin-on Transmission filter with custom bracket, Zoo-dad, Dieselsite Coolant Filter, Cobra 29LTD/NW CB, DVD and always looking to do more....  
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