Chicken Coop - LCD + 2 Fans + 2 Lights + RTC + DHT11 + Stepper

I can only infer you are using some sort of shield from some dfr seller. Are you sure you don't have a pin conflict between this hardware and your relays on pins 3,4,5, and 6?

To trigger event at certain time of RTC, I would look into how to do that in my alarm clock code that I wrote for my phi-2 shield.

There is a link to the alarm clock source code download. To be honest, this shield, which I designed, is much better than what you're using. There is an on board RTC and well-written menu and interaction libraries for user interface.