Autofocus problems with Nikon Nikkor 50mm f1.4 D lens?

I recently upgraded from a Nikkor 50mm f1.8 lens to the 50mm f1.4.
I used it properly for the first time, on AF-C setting, set to 3D tracking. However, every single one of my photos is slightly out of focus.
I tested that it wasn't my camera itself (Nikon D90) by putting the 50mm f1.8 back on it, and that worked fine.
Is this a common concern with this lens? I.e. Should I exchange or return it?

Added (1). In answer to the questions about 1.4 vs 1.8 - I shoot mostly live music photography, so ANY more light that it let in, the better. I also have 2 35mm SLRs and (albeit just down to laziness) I now keep my 1.8 for them.

I'm using single spot focus, and aperture priority mode. I do know what I'm doing with a camera.

The problem is not a lack of sharpness in the edges, because even when using the centre focus point it is out of focus. I did also try with AF-S and the result was no different.

I don't currently have any filter on the lens either.

The 50mm f/1.4 will not be as sharp as the f/1.8. They shouldn't be out of focus, just not as sharp. The f/1.4 is really an unnecessary lens. You will find that pictures are clear in the center and then slightly blur out at the edges when you compare them at f/2. The f/1.8 is clearly better. How often are you really using f/1.4? That one stop isn't work an extra $300 and less clarity. Try turning off 3D tracking. That's not a very good feature. If you're into photography enough to justify getting the f/1.4 you should be using single spot focusing and a priority exposure mode.
I would use one of the 11 focus points, AF-S for sure and then re-shoot on something is sufficient light. Learn to use the AF-lock button. Focus, press the AF-lock, recompose.

You may have a bad lens.

Take your camera and lens to the store and have them check it our. Why you want an f/1.4 lens when you already have a f/1.8 is curious to me. In the world of digital cameras, 2/3rds of a stop is not a big deal.

When the fastest film was 400 ISO and 1200 ISO when pushed and processed using special developer, sure it could make the difference between a shot with no blur and one with.

Now with dSLR's pushing 6400 ISO with much less noise than there was grain on Tri-X pushed to 1200 ISO, such a lens is more of a luxury than a necessity. I would suggest you buy a second (or third) lens like a 10-24 mm wide angle or 70-200 mm f/2.8

The f1.4 won't be as corner to corner sharp as the 1.8, but it will also have (slightly) less depth of field, may be that's what your seeing.

A lot of perceived sharpness ia actually contrast, again the 1.8 will have (again slightly) more than the 1.4.

Of course it's equally possible that the lens is front/rear focussing which is a fault condition. This site explains how to test for it.

http://photo.net/learn/focustest/

Lastly do you have a 'protection' filter on? If you do that could be the problem, take it off (and use it as a coaster).