Hi:
It sounds like you got the timing chain close, but it may be off a tooth. There is a crank and cam sensor that tell the PCM when to send spark to the cylenders. If the timing is off, there is no telling when the spark is getting to iits destination causing it to miss, fire at the wrong time possibly causing exhaust or compressed air to come back through the intake / breather. The only thing I can recommend is to recheck the timing. Check our "Popular Site Links" section on this page and go to "Timing Belt Marks" and "Drive Belt Roting Diagrams" and check if there is something different from what your book shows.
Let me know what you find. Keep it in mind, if you got the timing chain on that engine with out knowing for sure where the marks were and it runs, you did a hell of a job. My hat is off to ya.
Let me know if you have any other questions.
Joe
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Saturday, November 8th, 2008 AT 5:18 PM