Your "time based" effects like, delay, chorus, flanger, phaser should run through the effects loop. All others: distortion, wah, volume, should run through the front end of the amp. You would hook it up as follows:
Wireless OUT to first pedal in the front end chain
From the last effect in the front end chain plug a cable into the front end of the amp.
From your time based effects:
Send on the amps effects loop to IN on the 1st pedal
Return on the amps effects loop to the OUT on the last pedal.
(This could be the reverse...I can never remember!! LOL)
Hope this helps.
I use a Line 6 Pod XT Live through my effects loop and a Dunlop wah through the front end with an Audio Technica wireless...works great, although I think I need a better wireless as I do suffer from a bit of tone loss....most wireless systems will cause a bit of tone loss...although I hear the new Line 6 units are great.