For starters, I agree with some of the previous posters that true scale wheels are not a good mix with NMRA standard track. That said, the “semi-scale” (.088) wheels will work very well with NMRA track, with the exceptions which I’ve noted previously. Straight track will have no problems. The only “issue” may be with turnouts (switches). If you have Atlas “snap” switches, I would replace them immediately, whether or not you go with different wheels. They just are not reliable over the long haul. Other types should be checked for non-standard flangeways in the frogs and guardrails, and modified as necessary. Often it’s as simple as gluing a strip of styrene to the inside of the guardrail, to make the flangeway smaller.
If I were you, I would change out the wheels on maybe 3-4 cars, and haul them around the layout, noting if there are any problems. Then address the ones you find, and don’t sweat the rest. You may find that only certain brands of switch cause problems, in which case, you always have the option of replacing the switch, if you can’t figure out how to fix it.
I love the look of the semi-scale wheels, especially under cars with open ends or frames, like tanks and hoppers. I’ve changed well over 100 cars to sprung metal trucks with semi-scale wheels. I love it!