You can slightly rotate your string loop on you bow string to help rotate your peep for better alignment. This can be done with a 3 sided or 2 sided peep.

Or, you can change to a two sided Tru-peep. They are tubeless and easy to install without a press. Sometimes it does take two or three times of taking it out and rotating the peep a little more on the string to get it to align at full draw.

They do make bow strings that twist very little during the draw cycle, which makes aligning a peep alot easier.