Mikeeep,
I suggest you don't do this. The CR and MT are totally different. Granted, the cyclinder can be ported... but no matter what you do it her, it will still be a MT. The biggest problem outside of what you are planning to address is the complete bottom end. Cases, gears and crank. They are all different. The cranks are waaayyyy different and so are the cases for the crank area. The CR's crank and cases have tighter tolerences so they can generate higher bottom compression to push the air/gasses uphill into the cyclinder faster...
Also, when you port the cyclinder to generate more power you will produce it at high rpm's and your wide spaced gearbox may be spaced too far apart and have "holes" between gears. Especially second to third. A 50t rear sprocket may help this.
Buy an aftermarket pipe for a CR if it will fit. The stock CR pipes are pricey and the pickel silencers never worked good even when new. Too loud.
Forks should be allright but run 30 weight oil. Nothing thinner.
Shocks aren't shocks in my opinion, just dampners. There are replacements out there for around $170.00, I think. Progressive makes them. Your shop should be able to get these. If not, email me. My friend just put some on his '74 Husky MAG and they seem to work as good as my $325.00 Works shocks. But, with only 4" travel, who really knows. LOL
Frames break unless they are gussetted on CR and MT models.
Right foot peg breaks the bolt off so weld it before hitting a jump.
If I were in your shoes, I would do as much as affordable but never expect more than fun. But, most of us in vintage racing do it for fun. (till the gate drops)
Rick