Congrats!
You can adjust he height of the nozzles. I haven't had to do this yet so I'm not sure where the set screw is, but it shouldn't be too hard to find.
1. Level your bed against the lower nozzle.
2. Level your higher nozzle against the bed.
Here is a discussion about this for the Flashforge:
http://3dprintboard.com/showthread.p...-across-prints
Here is a video for the Makerbot:
https://www.youtube.com/watch?v=yBVUJpY2YX4
From those you should be able to figure it out.
Is this while everything is heating up, or when it starts laying down plastic?
Try unloading the filament and then reloading it.