There are lots of options, and everyone has proven their way is better than someone else, but in the end use what you like the best. Having flown with electronic controls since 1991 I have tried all forms.
Controls built into the handle - this is where the handle has the 2.4 Ghz controls and is also used for the elevator control. the RC car pistol grip have been converted to include a spot attach the lines. This probably would not work if the model was started as a CL stunt model
separate transmitter with stunt lines - This is what I use, the handle and lines look like the typical CL stunt setup. Then I hang the transmitter on my belt with a clip. Some people hang the transmitter on a strap around their neck. One person even held the RC car transmitter in their left hand and used the trigger to control the throttle. Either way the right hand controls the elevator, the left hand controls the throttle if you are right handed.
As for the conversion of the model to use the receiver is very simple, since your ESC probably works off BEC then that won't change. You should have throttle control with the same lines and everything else, same battery, motor and esc. Just swap out the timer with a receiver
1) remove the timer
2) plug the ESC into the receiver
3) Make a clip to hang the transmitter off your belt
Then you have throttle control with your stunt model, if you ever want to convert it back put the timer back in. Just remember to turn the transmitter on first, model second. When powering down, model gets turned off first, transmitter is turned off last.
Fred