Sounds like a fun project.
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My suggestion would be to adhere to the TBO and replace the motor with a BRAND new one each time it hits that mark. For 2 strokes the Rotax engines are probably the best ones out there. It is just the nature of the beast to have them wear out as the RPM's kill any motor. Short term failures consist of pistons, PTO ends of the crank and a few other weak spots in the assembly. Long term the case halves fret real bad so rebuilding a run out motor is not a good idea. I have 6 snowmobiles and the Rotax will outlive any other motor. Even my open Mod sled with a Rotax 670 is pretty dependable considering it is "heavily modified" and has put out 201 HP on the dyno. That was on race gas a few years back, I have since changed the fuel system to run Methanol with 20% Nitro, god only know what the HP is now but during the summer grass drags it will click off 4.97 seconds in the 1/8 mile @ 101 mph. If you pull your carbs apart they will probably have 190 -200 main jets, for reference my mains are now 720.
I change the pistons about every 50 hours, which takes me a few years since I fly ALOT more then I sled any more.
My suggestion is to monitor the EGT , but... read the plugs to get a accurate snapshot of the combustion sequence. Once you get a nice colored plug then remember the EGT numbers and use that as a basis.
Enjoy the toy, it looks like it will be a hoot to fly.
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Ben.