Confirm 1 thing for me... is the broken input shaft 20 spline?
Are you saying that all you broke was the input shaft on the diverter box? If that is the case I would just fix the broken shaft and keep the original gear boxes if they are the originals.
But something doesn't seem right....almost like you are mix-matching 540/1000 drives on it. Typically if the cutter is 1000 PTO everything is 1000 on the drivelines on the same cutter. I have never seen one mixed up where it had 540 on some drive boxes and 20 spline 1000 on others. That's why they don't make it like that. These do not interchange.
Your 986 has what is called "small" 1000 and 540 PTO on the back of the tractor. Sounds like you have a 1000 PTO cutter which is stronger than 6 spline 540 PTO.
You can buy all the shafts off another small 1000 cutter if you can confirm they are long enough. The Rhino cutter I have is small 1000 and all the shafts have slip clutches. I think that is the way to go about this.
My tractor has both 6 spline 540 and a 20 spline 1000 rpm.
The shaft that broke is on the cutter. It is a smooth shaft with a shear bolt (that did not break). Cutter is not super heavy duty (Rhino flex s15). I hate the shear bolts. That is why I am considering replacing the existing diverter (that has smooth shafts) with the splined one, and replacing the shafts with a model that has a slip clutch on it. My unit does not have slip clutches, but each PTO shaft has shear bolts. I am hoping to do away with the bolts and have slip clutches. The new diverter has 20 splines.
I can replace everything and have the end of the new 20 spline shaft cut off and a 6 spline end welded on (for where it attaches to the tractor). I would prefer to attach it to the the 540 end on my tractor since that is what I have always used. Not sure the cutter could handle the 1000 rpm.