i will look at the avatar thing later, but you shouldnt be having ammonia... if you have ammonia, then your biological filter isnt there or isnt sufficient for the amount of fish you have, which is minimual...
would like to hear your tank stats again... as i ahve zero memory.... but what size tank, how much sand, rock, fish and critters, and what type of filtration....
If i recall, you have a cannister filter, so, if you did 'clean' it, then greg might be correct in that your filter contains most of the 'BO', (biological filtration/living organisms)
It is normal for 'filter media' to contain BO, as BO is everywhere... it's on the glass/acrylic, on the plumbing, on the thermometer, etcx.
the difference being that live rock and sand has way more surface area then all those other components comb ined... so, if your filter has the majority of BO, then you disturb it every time you clean it, you can be kicking up stuff and cuasing havoc each time you 'clean'...
Normall it wouldnt be a problem if you have way more rock, but if you have minimal rocks then it can and will be something to deal with...
but, you can do as many water changes aas you want... just make the water match as closely as y0our display tank, and you should be fine...