HI @ctekellogg 
I think the NextSeq and the NovaSeq have the same quality binning and 2 colour chemisty. So what applies to one would apply to the other regarding denoising. There is a really good breakdown of NovaSeq processing issues here. I hope thats helpful.
Basically, I don't think you can't use dada2 - but you are correct in that it has some issues associated with it. I am unsure if the development team of Qiime2 have implimented anything along these lines.
Best,
Vic 