Pups don't sound right

I just put on 2 new "vintage" style fender pickups on an AMS I'm building. They have only about 1/2 the volume of the other pups on my other tele and a mushy background sound, almost like wind coming and going that lasts after the guitar tone is gone. I also added a .47 cap and changed the .01 cap to a .02 cap. Any suggestions? The pickup heights are correct.

Where did you add/replace these caps? A .47uF cap is HUGE. The tone cap should either be a .047uF or .022uF cap. If you are using a treble bypass cap, it should be no larger than .001uF, and even that is pretty large.

Try wiring the pu's directly to the jack, make sure you like the sound without any electronics between the pu, and the amp. As Jim C. said, those are way huge cap values. Also, make sure your not grounded out somewhere, and that the leads are not reversed.
I have a strat with some GFS blue pu's that sounded awful till I put them in another pickguard, now they are real nice. Came to the conclusion that they were not wired correctly in the original.

Thanks, It is a .047uf. I think I'll put on the .001 that came with the pups and see if that works out. Thanks for the response.

You could try changing the pup height, too. Sometimes that makes huge difference, but you'll probably notice the tonal change more than the volume change.

Pickup height has a huge affect on output. Double the distance and halve the output. Halve the distance, double the output. Sometimes a little means a lot.