allrighy ill assume you have live rock. your mechanical filter, the dual pengiuns, can help to filter the water. the pads that are in the filter serve to filter large particles and the carbon will help absorb impurities. the pads in the filter are entirely optional and if you wish to remove them you can. i would recommend at least using the space in the filters to put carbon that you change on a regular basis. if you choose to run the filters padless or not, at least leave them on. from what i remeber the filters have a flow rate of about 330gph. you do need a high flow rate in salt tanks to keep them oxygenated properly. a good flow rate will also keep debris from building up in your tank and help to make sure it gets taken care of by the tank inhabitants. if you do not have them i would buy two power heads rated at 2-300 gph and place them in opposite corners of your tank blowing to the middle. that should be all the water flow you will need.
now, the filters do provide a space for good bacteria to build up on. the biowheels do as well but i have been told the biowheels build up nitrates and should be removed. for now i would not worry about it, but in the future you could do some reasearch on its effects. the filters do not DO NOT provide filtration for your fish, well very much at least
. the live rock you have is all the filtration you need. there is an insane amount of bacteria built up on and inside your rock that can handle most anything within reason you throw at it. throw in a clean up crew in the tank and theres all the filtration you need. so thats how it works.
if you do not have live rock the filters still do not do that much filtration. alot of good bacteria will build up on whatever surface is in your tank. so the decorations and the sand. it just means there is less space for it to build up on and thus if you add a fish to the tank you need to wait longer before adding another so that the bioload can balance out.
so thats that in a nutshell. let me know if you have any questions. it still does not solve your fish problem but i think that can be cured by letting the tank mature more and raising your ph and salinity levels.