It sounds unnatural. Do you have good headphones? I know that noise reduction reduces time of reverb and deforms sound when noise is loud.
"successfully capturing sound in a noisy room is a time-consuming VERY expensive undertaking that is best accomplished by professionals with professional (very expensive!) equipment."
It is not fault of equipement, but method of recording. How I say, microphones amplifies sounds from enviroment (because they're condenser).
"as for the microphone usage, i don't mean "close" as in "open & close", "but rather "close" as in distance from the pipework. most of the noise i hear sounds like noise from the room. when listening to the organ "live", the human ear typically filters out most of these noises and they are not noticeable. recording devices, however, tend to amplify the room noise."
Pipe sound in case (or near the case) isn't the same than this in front of case. So method e.g. with impulse reverb isn't good.
"if your microphones are placed closer to the pipework, the sounds you want will be more prominent than the background noise/room noise. thus any electronic filters have a "cleaner" recording to process and will therefore take a smaller bite out of the natural sound you are attempting to capture. any electronic filtering available on the consumer level will have some degree of unwanted effect. "
Can you send me link to these electronic filters?
"you might experiment with foam or accoustic products positioned behind the microphones to reduce the noise level in your recording."
I can change characteristics. Efects will be probably similar. Blower is recently in the organ and blower is recently the louder thing.
"you might also consider checking the way your microphone is secured in the microphone stand. there are specialty mic holders that reduce vibration and unwanted noise by isolating the microphone from the stand. these are sometimes referred to as "shock-mount."
see this site:
http://www.starmgc.com/micacc.html "
I don't think, that these things will help me, but I don't know it.