It won't affect your main jet selection, however, it will most certainly affect your idle jet size and probably neelde position too. You may even need to mess with your slide cutaway to get the transition just right.
As TwoTired pointed out, the idle circuits on carbs with no accelerator pump are *intentionally* set over-rich. This is so when you whack open the throttle quickly there is enough fuel there to maintain combustion. If the idle were set to a stoichiometric ratio of 14.7:1 then as soon as you whack the throttle, the vacuum in the carb throats drops off very suddenly. The differential pressure between the low pressure in the carb throat and the atmospheric pressure in the carb bowl (vented) is what drives the fuel up and through the jets. Thus as you quickly open the throttle the bike has a tendancy to go lean suddenly ... and if not compensated for it will hesitate due to a lean misfire.
The accelerator pump compensates for this effect by adding extra fuel whenever the throttle position opens up.
There would most definitelely be some trial and error in tuning the off-idle transition.
IW