I think most people on this forum favor a free-floated barrel.
Bedding the barrel, even partially, will affect the harmonics. Not necessarily for better or worse, just different, so you will need to find a load that shoots well in your rifle, and that load will likely be different (again, because of the variation in barrel harmonics) as it would be if your barrel were free floated.
So, in a lot of words, my thought would be to go ahead with your load development, shoot it and see how it performs. If you can't stand it, you can always remove some of the bedding compound, but hey, you might have a great shooter in your hands...you just never know.
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