I'll try to toss together a few basic presets that you can print & take with you. The PitchFactor interface looks daunting at first, but it gets easier once you have a little time to spend with it. That's when you discover just how versatile and layered the programming is.
The Pog2 is a very good device. It's easier than the Pitchfactor to get the exact sound that you're after . But the Pog2 is a much narrower device in terms of what you can do with it. I look at the Pitchfactor as a half-dozen pedals in one box.
I hope you don't mind me making a few more suggestions. I don't know anything about your setup, but you have a great start by following it with the ModFactor. Swirly, rotary modulation with gradual speed changes does a lot for organ emulations.
The other big item is control over the 'envelope'. The PitchFactor alone is OK for a doubled, guitar + organ phrasing. Many times you'll want to disguise the ultra-sharp attack and string decay of a guitar input, though. A volume pedal, expression pedal over Mix, or pinky volume control can help. An automatic slow attack is a little faster and more natural.
I have a few of those options already on my pedalboard. The AdrenaLinn III has some 'Slow Gear' effects. The Pigtronix Philosopher King gives me complete control over creating an organ-type envelope. It's close to a synthesizer ADSR in that I can shape the attack, sustain (via compression), and the final decay of the guitar.
The real surprise came with the E-H Freeze (Superego looks even better). By 'freezing' the input before the PitchFactor, I can hold the sound at very consistent levels. The 'attack & release' are controlled by footswitch technique. It's goes a long way toward creating my emulations of keyboard-based instruments.
