No, there aren't really any differences. The upper intake lacks one vaccum port, and that's about it. One word of advise is that 94-early 96 V6's are notrious for blowing head gaskets. Just thought you should know. So if I were you, I would use the engine for parts, or you can put the 94 engine in the car and change the head gaskets then you will be fine.
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60' ~ 2.1, 1/8 ~ 9.61 @ 73.4mph
Living one day at a time!