If the gunsmith examined your 39-2 and deemed it necessary to run it in as opposed to replacing springs and/or whatever, then go with that run-in suggestion.
However, one can get a matched (balanced) set of springs from Wolff Gunsprings (
Wolff Gunsprings - Firearm Springs for Semi-Auto Pistols, Revolvers, Rifles, & Shotguns) and replace your 39-2's various springs, including the one inside your magazine. I keep a spare set on hand for each of my S&W models, but I think nothing of tearing down a gun, too. Wolff does a good job of explaining the spring rates, too.
Personally, I can't speak at all to the new polymer-based handguns (though I do own a couple, come to think of it) but that a steel-and-wood gun is new and needs a run-in isn't unusual.
Generally considered one of the most accurate semi-automatic handguns ever built, the 39 series needs that run-in as much for the barrel alignment as anything else. Remember, please, that while we tend to think of a barrel as the bore (or front of gun) if one takes a cleaning rod and commences to clean, one finds it runs all the way to the breech area. And what's directly beneath?
A ramp that's connected to (made from) the same piece of metal as the barrel, breech, bore and etc.
That ramp's interplay with the magazine is important. As it "loosens" it'll feed better and you'll also see improved groupings on a target.
Of course, one doesn't call it a barrel at the point where empty cartridges are supposed to yield to the new, but the idea is that if one looks at a barrel as having an imaginary line running through its center point, then that line extends indefinitely.
That same plane interacts with the magazine and its flow.
As much as people like a "tight" gun, that idea of tight really doesn't apply to the same degree in an automatic, though I wouldn't go with "sloppy," either.
Once your 39-2 loosens up, it's likely it'll be putting a magazine's worth of rounds within a 1.25-inch area. Not too shabby (though a revolver can do better).
If you want to achieve that grouping, then take the process methodically. Bing (or Google) "semi-automatic run-in" or something similar and find an expert's suggestions. Read a couple or three to get some good ideas and then follow those directions. Indeed, I'd expect someone in this forum has long ago posted a great set of run-in instructions.
There are a couple of other things you might do, but I expect there are other forum members who'll add their thoughts, too.
It'll take some time, but that 39-2 is worth it. Really.