Howdy Todd,
In a recent PA mag. edition, there is an article of paper tuning a primitive (or trad.) bow. First, I'd suggest you look over that article.
But. I think the main "issue" you are having with your attempt at paper tuning is that three of your six arrows has to have NO feathers. You see, the feathers help to straighten things out in flight. In paper tuning, you are trying to tune your bow (and arrows) such that the arrows fly pretty darn well without any feathers.
So, after stripping three of your arrows, you'll have three feathered arrows to compair their flight.
In paper tuning, you are to first check that your featherless arrows are not hitting the target above or below the feathered arrows. (This should be corrected by adjusting your little brass knock on your string (down or up).
Then, you can make small adjustment of your brace hight, by twisting the string, to see if that improves arrow flight (or noise / vibration).
Still, you'll probably see a difference in where the feathered vs. non-feathered arrows are hitting the target (grouping left or right of the other). This is when you can make adjustments in you tip weight to see how that affects flight when compaired to the feathered arrows.
Lastly, you can also shorten the arrow length (a little) to increase spine if necessary.
I hope this is helpful - check out that article,
Canoe