Just remember when you start back up, that stability means months and years vs days and weeks. It can take a long time to resolve issues like what you were experiencing. I would say it's not uncommon for people to spend six months to a year getting over something like that, just by being diligent with their maintenance procedures and waiting for the tank to turn around.
Nothing good happens quickly in reefkeeping, and changing many things within days or weeks of each other does not help your tank nor yourself. If this was my tank I would have kept it running, resolved the RO issues so that my water going in was pure, stuck with regular water changes for a few months, and observed the tank to see what happened. Some problems require research and and a bit of ingenuity (
http://www.reefcentral.com/forums/showthread.php?t=1620464) but by keeping on steadily, changing one thing at a time (remember - over the long term!!! Wait a few weeks between changes) any problem can be overcome. Reef keeping is just a brutal lesson in patience.
Hopefully you find some of that advice useful, and sorry if it's already been said somewhere. I swear I'm not trying to beat a dead horse or add insult to injury! Best of luck.