I do a total change. Rats go into a holding bin, a routine they know very well, I dump out the old, wipe down with lysol wipes or the generic wipes, and fill back up and rats go back in. This is my chance to give everyone a really good look over and see if I have any neat pups.
I haven't had any problems with using the wipes. A little sneezing from the initial dust of new bedding, but usually by the time I put rats back in, the bin has dried and the smell is gone.