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Even if the springs were in there at an angle it wouldn't make it shake. Let's say the truck was in a front end collision and everything was knocked over a couple inches, the springs would be at a good angle and the axle shifted to one side, it would likely not cause much (if at all) trouble. Now if one rail took a direct hit and caused one spring to move rearward, that could cause trouble, but even that likely wouldn't be any kind of a shake. It would be a pull or maybe funky steering through a corner. If it were not leaf springs and a solid axle, it would be a different story.
Even an alignment alone shouldn't fix a shake, but an improper alignment can make a very minor issue more severe. A slightly out of round tire could shake with one toe setting but not another. IMHO, if it drives fine now, don't worry about it.
As for the shifter shake, it could be a sticky u-joint, driveshaft balance, or improper pinion angle. Maybe a rear tire shake, but you should feel that in the seat of your pants.
Speed wobble can be deadly because it can cause you to loose control of the vehicle at high speeds but also it can be the direct cause of catastrophic ball joint failure.
The bandaid for wobble is high performance steering stabilizers. If one doesn't work then use 2
LOL
its caused from using large diameter tires that exceed the limitations of the factory steering stabilizer.
You would experience the same thing although to a lesser degree if you ran stock tires with out any steering stabilizer
You shouldn't have any death wobble if you have a stock truck or slightly larger tires. Death wobble is because you have worn front components or loose components which is compounded by using larger tires.