Audio Noise in exported file

Hey all. This is driving me crazy and can't figure it out. Using Premiere CS6
I am editing 1920x1080 24p ProRes 422 footage, with audio being synced up from an external source. Audio is .wav 48 khz 16 bit.
I am increasing the gain by right clicking>audio gain, and bringing it up about 30 dB. The vocals are then where I want them, but there is a bit of audio noise. I apply the denoiser and make my adjustment and ALL of the noise is gone. First time I did this I thought it was a miracle because it sounded fantastic!
I went and exported my sequence, 1920 x 1080 24p ProRes Audio 48, 16 bit uncompressed.
And to my horror, where the audio bits come in, there is very obvious audio noise. It wasn't like this when editing the project, only when it was exported. In the sequence it sounds great.
I'm tried creating different sequences, exporting with different audio formats, but I can't figure this out. The rest of the audio, mostly ambiences and other sounds with no effects applied, sound great.
One thing I noticed, is that when right click and go to properties on the audio file it says:
Source Audio Format: 44100 Hz - 16 bit - Stereo
Project Audio Format: 44100 Hz - 32 bit floating point - Stereo
So apparently the source is different from the project? I would think Premiere could handle slightly different formats. Not sure if this is the issue, because I can't seem to select audio presets when creating a new sequence.
Thanks,
Dan
Computer specs:
MBP 2009 2.53 ghz c2d
8gb ram
500 gb int
1tb external fw 800 media drive

I'm trying that now. There is a noise removal feature that is a process, and one that is adaptive.
When I try the process, it takes away all the volume that was gained. When I increase the volume, the noise comes back.
When I try the adaptive process, I get the audio sounding good and how I want it (in the effects window that pops up), but as soon as I select okay to apply the effect, the noise returns in the main editor! <<<--- kind of like what Premiere was doing when I exported the file!

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