RE: 29" draw shooting 31" arrows??
2" difference in length can make a huge impact on spine. Therefore they may shoot differently. I would suggest that if you buy these arrows in the same spine you are now using that you take them to a shop that can cut them down for you. It should only add a couple dollars to the price, but they'll be more compatable to your bow setup.
If you don't want to cut them to the proper length then I would go to a stiffer spined arrow. For example, if you're now shooting a 400 spine then I'd choose a 340 spine. Of course this will necessitate retuning your bow for the new ones. Not only will they be stiffer, but also heavier, meaning a different point of impact.