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either that joint is binding because they have been squeezed together and deformed from bolting or the the shaft going thru the firewall is minding on the one from the gear box.
should not need to. if the sliding shaft mechanism under the hood is not sliding you would not have a enough wiggle room around the shaft assemblies to take the entire thing out by disconnection even at the gear itself. i really thing the first joint you unbolted near the sensor has deformed a bit. you could really see where the hardware was biting the metal. you could try applying some clamp force to the sides of the outer tube that are between the bolt hold to see if you "re-form" it a bit to take the squeezing pressure off. otherwise you will just have to keep at it. and getting it back on may be just as bad.