So many questions need to be answered first...
The biggest advantage of a two-piece driveshaft is their ability to correct driveline angles that two uni joints alone might have trouble with. The position of the centre bearing can be used to split the difference of an extreme alignment issue. But then you have the added initial expense and the hassle of mounting the centre bearing to consider.
Do you have any idea what your driveline angles will be once everything is in situ? Are you using a live axle or IRS?
The other advantage is with the critical speed of the driveshaft, speaking vibration-wise, the two short lengths of a two-piece shaft are treated as individual shafts so with both being very short (compared to a one-piece shaft) they have an extremely high critical speed, usually way above any practical limitations. This also allows for much smaller diameter, lighter shafts.
If you like I can crunch the numbers but I'll need a ton of info like rear tyre size, diff ratio, driveshaft lengths (uni centre to uni centre), shaft diameter, material and wall thickness, and the specific uni joints used (like 1310, 1350, etc.)
In conclusion, the two-piece driveshaft will likely cost more and require more initial setup, but will allow much more flexibility and probably have less vibration issues if set up right.
EDIT: DOH! I need to learn to type faster...
Edited by Bigfella237, 31 January 2018 - 09:58 PM.