Distance is your key. Do not record too close to the organ or it will sound very weak. The larger/louder the instrument, the further away you would want to place the mic array. You want to balance the distance so that you are getting an even balance of reverberant sound and direct sound from the organ.
Of course, if you were recording a chamber organ, then you could record closer, but most cathedral organs don't fall into this category.
You can get a decent recording with two mics, but I generally use 4 for a little more control in the mix.
Two mics will be directional - I find ORTF Cardioid works well. The other two will be omnidirectional and very widely spaced either side of the ORTF mics.
Try to use high stands if at all possible. Mine are large manfrotto lookout and lighting stands which get me about 10-12 meters high.
At the distance you need to record, the sound of the keys, stops and pedals won't be an issue.
Capsules used in this setup: MK4 (ORTF) MK2s (Wide spaced outriggers). Each pair panned hard L/R in the mix.
Considering your 'studio' voice mic - the frequency response of your organ mics need to be as flat as possible. Studio 'voice' mics generally don't exhibit a flat frequency response as they are tailored for voice frequencies and will likely have an attenuated lower end to cope with 'proximity effect'. Consequently they are not suitable for recording instruments at a distance, which you need when recording an organ.
Example sound is: https://www.dropbox.com/s/0yaqavubuur80xs/ANSCO-NOTREDAME-003_5.m4a?dl=0