Have SN, Aquired RN (w/pipe, head etc). Prefering SN handling. Swap engines or parts?

Location
S.E Wis
I currently have a '94 SJ (msd, lightened flywheel, stainless impel) that I've driven for decades. Wanting more bottom to mid range power (don't care about top end). I recently aquired a '00 SJ (msd, ada head, factory pipe, jet works flow valve, 9/15 hooker). The '00 rips. Can only keep one ski though.
Expected to sell my SN in spring. But after riding both back to back for awhile I find myself preferring the '94 handling. So I am now leaning toward pulling the go fast parts from the '00 and installing them in my '94.
Thinking of either swapping complete engines and pipe or just swapping the pipe and head onto my single carb '94.
Some say the single carb will have better bottom end with better mpg. But with the pipe and head in the mix I'm not sure.
Tuning the single carb would be easier as well.
I know selling the '00 with my '94 engine and stock exhaust would bring less $$. But would it be worth it?
Or would swapping the pipe and head with my stock '94 be the best option (for combination of bottom end power and fuel useage).
 
Location
Michigan
I'd just swap the head, pipe and the hooker prop and leave the rest. Especially if the current engine in the SN is one that you've had for a while and know how reliable it is. Who knows how the RN engine was taken care of.

My son has a SN with a JM735, single carb and coffman pipe and it rips and seems like it barely uses any gas.
 

bored&stroked

Urban redneck
Location
AZ
Not sure how they handle different being the exact same bottem end that touches the water.
But if you want to keep the SN, then yes swap all the good stuff over. Dual carbs are better for power. My wifes ski uses a bit more gas then me but she also pulls harder from bottem to top end even with her higher port timing.
 
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