Personally I would leave it alone. I definitely wouldn't super-glue anything, or make any other permanent modifications. I'm aware of one example that was extensively rebuilt, and supposedly performance was improved. The gentleman who did the modifications was a master machinist. If you lack those qualifications, chances are anything you do won't help, and it could very well make things worse.
These locos are known to be noisy. Compared to the redesigned model, the '46 has more gears in the drivetrain, including spur gears which are inherently noisier than worm gears. The '46 model is also known to run slower at a given track voltage because it's geared lower. This is a GOOD thing!
The late C.W. Burfle owned a handful of these '46 Berks. He stated on the Forum that his best runner had just as much play in the bearings as the others, so shimming is not necessary, and isn't the answer to smoother/quieter operation. These were originally mass-produced toys. There are a lot of variables related to manufacturing, assembly, and the care and treatment they received in the 70+ years since which account for differences in operation.
Someday, perhaps when I'm retired, I want to have a "clinic" on the 1946 model 726 at York (as Dr. Bruce Greenberg has done with some standard gauge pieces.) Maybe together we can lead a scientific investigation, and find out what makes the quieter, smoother "Stradivarius" examples run better than their peers. This could be a foundation to improving the breed. Until then my advice is leave it alone and enjoy it for what it is.
Finally a bit off-topic, but if you really want a quiet, smooth, traditionally-sized road engine, consider a LionChief Plus 726, or a RailKing Mohawk made after 2008. My $.02.