From what I've been told about combi boilers NO you don't have to touch the boiler. Turning off the mains should shut down the boiler anyway as they work under mains water pressure.
So just turn off the mains water and do what you have to with the toilet. If you're worried turn the boiler elecs off.
Anything you replace it's a good idea to put check valves in the feed pipes so each part can be turned off individually.
rob
June 2007