If you want to bypass all of the amp modelling, simply do not set an amp model. 

If you want a clean signal going from your guitar to your amp, you can create a patch that is empty of effects ad , with no amp.  Take care to check that the level of the guitar going into the amp is the same with the POD plugged in as it is without the pod in the system.  That will avoid a loss of dynamics and distortion.  Turn the master way up and correct the level using the Mixer.

If you want to have a few simple, switchable effects like a boost then the easiest thing is to create a patch including those effects but without an amp modes.  Save the patch with each of the effects turned off.  Assign Footswitches (FS1 - FS8) to the effects that you might want to use.  In that way you can kick on boosts and other effects when you need to from within the patch.

Couple of tips for a blank/effects only patch.

1. Set your inputs to Input 1:Guitar.  Input 2:variax to avoid any clipping (unwanted distortion) at the pod input.
2. Make sure that the pan controls on your mixer are both centred.  This will help ensure that there is no nonsense with stereo effects not being heard at the output