Good to see you again, & hope you're getting settled into your new situation!
Yes, you can do the electric fans & underdrive pulleys and still use the tuning in the Micro Tuner, no problem.
There are a number of great aspects to those mods that aren't immediately apparent, for example, even though you're getting about 30 more peak HP to the rear wheels, you're going to use *less* fuel than before, as the motor was using more fuel to turn the fan & all the other accessories. So what that means is that for these 2 mods, meaning the electric fans & underdrive pulleys, we don't have to take them into consideration in terms of fuel delivery system capacity (injectors, fuel pumps, etc.), a very important aspect for many people - especially on the 4.2 V6's, whose 6 - #19 injectors are only good for about 250-260 HP SAE at the *flywheel* at absolute max duty cycle.
So the bottom line is there are no tuning changes needed, and you'll burn less fuel (all else being equal) than you did before, it's a real win-win situation when you reduce/eliminate parasitic losses like this.