I put the CO2 line directly into the intake, I use 2236's as CO2 reactors and they've been running like the day I bought them, they only make a little noise when they burp excess CO2 occasionally.
I diffuse through my canister as well (XP1) and it's the easiest and most efficient way. No need to purchase anything else. I've never heard of anyone running into filter problems using this method. I would suspect something other than Co2 was the problem...