1999 Ford Windstar

Engine Performance problem
1999 Ford Windstar 6 cyl Front Wheel Drive Automatic 102000 miles

I have a 99 Windstar that had vacuum leaks in the upper plenum. While I was changing it, my son dropped a bolt down further into the intake. Soo. I took that one off and fished the bolt out of there. I replaced all the intake gaskets, etc. The check engine light is not on anymore but it runs rough when it is put into gear. When it is in park, it runs ok. I'm not sure what I need to do. Any ideas on why it would run rough now? I took it for a drive and it ran fine at higher speeds but when I stopped, it ran rough. Almost like it wants to die.
May 19, 2009.

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