The reactor input is facing towards the drainage from tank to sump, the output is either directly plumbed into the skimmer pump or extremely close to it. That way all the water exiting the reactor will be skimmed right away for all the excess bacteria produced by the pellets. over time, slowly(once every couple of months) inch the reactor output away from the skimmer till you have about 2 inches of play....that way your tank can slowly adapt to the extra bacteria thus reducing the chance of a crash happening again!

Non the less, I really hope everything pulls through for you!

Sounds like you have things under control. Feel free to give me a call tomorrow if you need a hand, as I have the day off (mostly anyways).

Thanks for your help everyone! My tank is clear, corals healthy and fish look fine! Time to get that sump up and running so this doesn't happen again!