Engine has a hard time Starting and won't stay idled when clutch is engaged

you got reading to do - all info you need is here

first, read adjusting the cable & clutch

choke is seldom required, but can make an easier start as long as you turn it off right after it starts (if it only runs with choke on, read about air leaks)

Keef, it sounds like your clutch needs adjustment as Crassius said because your engine should be able to idle with the clutch hand lever in the lock out position.

I'm sure there are guys here who can break in an engine with a bunch of performance upgrades right out of the gate but they have built tens or even hundreds of motorized bikes and would have come into the hobby with a solid base of mechanical experience. I would suggest that you restore your engine to all the stock parts and break it in like that and then add your performance parts one at a time. This method will give you a good idea how it all works and increase your knowledge base as I can guarantee that at some point you will have to do a roadside fix of some kind. it's really a good idea to do a lot of reading here for many reasons.

You can lean out your gas/oil mix to break the engine in. The mix you are at now is overly oil rich/heavy. There's tons of info in the threads on this subject.