Have seen that before. I use the lisle tool to pull the pushrods. If you buy reman heads for a 3.1/3.4 there is a sheet in the box stating to make sure the rocker arms are torqued with no load on them. I torque the arms and then install the pushrods with the lisle tool when installing reman heads.
As far as diag goes, I start every misfire diag with a relative compression test, use either voltage or current on the scope. I do this because it takes 30 seconds before doing any other testing. I would then either hook a pressure transducer to a central vacuum port and take a cranking vacuum reading, or go right to in cylinder with a transducer to see whats going on. On cylinder 5 on an aztek I would look for a reason not to pull the plug so I would use a pulse sensor with an ignition sync and you would have seen the missing vacuum pull and with the sync be able to identify which cylinder (helpful for double checking that the misfire monitor is accurate). At that point, you are 10 minutes into diag and know that we are looking at cam/lifter/pushrod/rocker so you know what you will find when you take the engine apart