Has anybody setup a limbdriver on an allegiance with an anchor sight or timberline no peep?

The rest shouldn't be an issue with those. Isn't a rest a rest in regards to your peep? I guess I'm not understanding your question so I"ll bump it up for more info.

I don't think there will be any problem or interference unless possibly you set the no-peep or anchor sight on the back side of the riser, close to the rest.

For a normal installation, I can't see how it would interfere at all.

Right now my peep is on the front of the riser, I have heard of people having to put them in the back of the riser on certain bows. I just ordered an allegiance an was wondering if the no peep had to go on back for that particular bow and if it did would the limbdriver cord interfere with it

I highly doubt it, the Limbdriver cord would parrallel (pretty much) your cables. If the cables don't interfere, neither will the cord.