It is true that the feces in large quantities can transmit a disease. Cryptococcosis is the most common culprit. Feces usually has to be in large quantities and dry so it can aerosol. There are also other fungal and bacterial infections that can arise from large quantities of any species' feces.
I clean my rodent tanks completely once a week. I collect all of the wood chippings and either throw them away in a closed plastic bag (this gives it a chance to solarize before the bag eventually degrades) or mulch it. It works very well in my yard around the flowers and trees. It needs to be composted for a while first though so the naturally occurring fungus spores the rodents carry around don't start growing in the garden though, lol. I have had some very interesting looking mushrooms pop up before...
I use cypress mulch with a little aspen in the nest corners. I sort out the occasionally paper towel, toilet paper roll, pig ear, or corn cob and either return those to the tank or throw them away.
-----
25 year old 0.1 from Lincoln, NE
Ball Pythons - 0.1 Pastel, 1.0 Pastel het Pied, 0.1 Pied, 0.1 Cinn, 1.0 Black Pewter, 1.0 Woma (hidden gene?), 0.1 Yellowbelly, 2.1 Normals
Kingsnakes - 1.0 L. m. thayeri, 0.1 L. m. thayeri X L. alterna, 1.0 L. g. californiae
Other - 0.1 Whitesided P. catenifer sayi, 1.0 H. nascicus, ?.? Chrysemys picta, 0.1 crazy cat, 1.0 husband