As you've discovered, there are minor differences in the engines from a performance standpoint and this is where some of the power gains come from as the years progressed. Tuning plays a small part in this as well, but not nearly as much as you'd think. This is why we are still able to achieve reasonable power gains over successive years.
You definitely are better off with the late model engine, even with the little bit of difficulty you're having at this point.
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Bill Cohron - The Mad Doctor
Power Hungry Performance - The ORIGINAL in Ford performance tuning... Since 1996!
(678) 890-1110
www.gopowerhungry.com - Home of the Hydra Chip, Minotaur Tuning Software, and the new Orion Reflash System for Navistar!
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