I have seen lots of folks claim it a good idea to use bullets larger than .355" in some 9mm pistols, particularly the Beretta 92. I think this is driven by the idea that the bores of these barrels may be very slightly oversize. I have tried Hornady 125-gr XTP .357" bullets in my older Beretta 92F, and they did improve accuracy. Whether that was because of the size of the bullet, or the possibly higher quality of the bullet (compared to what I had been using), or a combination of both, I cannot say.
As to whether it is wise, I guess someone with the sophisticated equipment needed to do the testing could tell us a lot more, but in the case of my limited testing in my Beretta, everything seemed to proceed normally. The loads I tried were not really hot loads. I selected a single, moderate powder charge that I thought would be safe for all of the several bullets I was testing. I had used the charge and powder before and knew the combination tended to be accurate and function well in my gun. There was no sign of anything alarming - gun functioned normally, fired cases looked normal, accuracy improved.
You probably could have fired my loads in any 9x19 pistol without the slightest problem, regardless of actual bore size, but if you worry about this and feel like you have to keep the loads with .357 bullets separate, obviously the easiest thing to do is don't.