We were all noobs once, and hopefully continue to learn as we gain experience.
With apologies if I've made the following too simplistic and explained things obvious to you.
Read through this, but the bottom line is you don't need to change anything in Phoenix when you switch between three and four channel models.
All Phoenix models (whether three or four channel) roll with the right stick, and channel assignment is taken care of within the Phoenix model.
Based on my DX-6i transmitter, here are the channel assignments typically used with both real and Phoenix models.
For clarity I've ordered them as used on left and right transmitter sticks.
transmitter stick; channel; typical function
left - fore/aft; ch 1; throttle
left - left/right; ch 4; rudder (4 channel model); unused (3 channel model)
right - fore/aft; ch 3; elevator
right - left/right; ch 2; ailerons (4 channel model); rudder (3 channel model)
a switch; ch 5; gear
a switch; ch 6; flaps
Three channel models use throttle, rudder and elevator only; with the rudder rolling the model because of wing dihedral.
Four channel models use throttle, elevator, rudder and ailerons; with roll controlled with the ailerons and yaw controlled with the rudder.
And since you traditionally roll a model with the right stick, the rudder is switched to ch 2 in a three channel model.
But you don't need to change channel assignments in Phoenix, that's taken care of within each model.
Stated another way - all Phoenix models, whether three or four channel, roll with the right stick.
Hope that clear things up, rick