I haven’t spent as much time with Pro Pinball as Bowen so can’t add much to his comments there, but I’ve played quite a bit of both Pinball FX2 (Edit: Actually, it was Zen Pinball 2; I was under the mistaken impression that this was the same thing as PFX2) and Pinball Arcade (on both PS4 and iOS) and can tell you that they both suffer from a similar problem with unrealistically overpowered flippers. When you play a real, physical machine you’ll find that things like ramp shots are much more difficult to time and make consistently (and of course will vary a lot depending on the actual machine’s condition and setup), whereas in the emulated versions nearly every well-struck shot rockets up the ramps.
Other physics are a little bit off as well, for example nudging on Pinball Arcade is much easier to use consistently and affects the ball path much more dramatically. The ball trajectory on most kickouts like the Stroke of Luck hole on AFM is virtually 100% predictable. Farsight has tried to introduce a few tweaks to its physics engine recently to allow for things like live catches, but it still has some room for improvement. Overall though, it’s still useful as a way to learn the rules and objectives on games you don’t always have access to, so I prefer it to Pinball FX2 for that reason alone.