Yeah, my roommate followed the fritzing picture. In the picture, it shows a resistor on the middle pin of the green mosfet and the blue mosfet. Instead of putting the resistor there, he mirrored the configuration for the red mosfet in that picture. I hope that's a little easier to understand.
The problem is that when the IR sensor is plugged directly into the board and we press the brightness down button on the remote, everything stops working. The sensor starts reading in random values and random time intervals and no longer reads in the commands from the remote. It doesn't start working again until we reset the arduino.
As for logic level MOSFETs, are RFP30N06LE from sparkfun what you were referring to? Sorry, I'm pretty new to this.