Re: pedal arrangement/order
I would advise against using the GE-7 in front of the amp, as it tends to be much noisier there, especially if you're using gainy sounds. In the FX loop it's much quieter and the Noise gate is designed to go in there anyway. So I'd put the tuner in front of the amp and the EQ and noise gate in the FX loop, in that order.
Additionally, you'll get better sound control if your additional EQ is AFTER your distortion stage (i.e. preamp or pedals and thus in the loop). Post-distortion EQ always sounds better to my ears.