Pontoon boats have at least two hulls built into them so that makes the pontoon boat a better option when it comes to boating on rough water.
So the pontoon boat is much more stable and safer when you're out boating on rough waters.
But still you should use as much caution as you can and be very safe when out on any waters whether in a pontoon boat or in any other boats.
Pontoon boats handle choppy and rough water much better than any other boats so you'll be a bit safer on the choppy and rough water than you would in other types of boats.