I would clean every thing out and leave all the equipment in the tank and run vinegar for a few days with all the equipment running, drain the tank after everything is clean. It might take you a couple cycles to get everything out. Once that's finished, dry all components and store it properly.
Couple of options for live rock, you can leave it running in a tub with heater and a powerhead to keep it alive or you can dry it out for easy storage but if you do that, when it's time to restart, you will either have to use acid or vinegar to get rid of all the dead organics so you wont have to battle endless days of algae issue.
Let me know if you have anymore questions.
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