More then likely it is still attached somewhere. If it won't come out, it may be caught on the mainshaft of the transmission. Are you 100% sure you have all the bolts out that attach the tranny to the engine? If you lay underneath the tranny can you see light through the top of the transmission? The gap around the mating surface of the tranny to the engine should be even until whatever is holding it on is found. I attached an image of the tranny so you can make sure there are not any bolts that are hiding from you.
Also, I am assuming your car is the GTS V6 5 speed.
Image (Click to make bigger)
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Monday, January 28th, 2013 AT 9:43 PM