I'm working with the FFT, and I've found that it output certain frequencies, but not all. If I input a 440Hz sine wave with 4096 samples, there is no 440Hz response, but instead it's distributed among a few frequencies, like:
...
421.875Hz: (mag: 0.207764, phase: 0.140608),
433.594Hz: (mag: 0.580138, phase: 0.144488),
445.313Hz: (mag: 0.690567, phase: -2.99323),
457.031Hz: (mag: 0.212671, phase: -2.98935),
...
Since the FFT is a lossless transformation, it appears that you can represent a sine wave as the sum of multiple sine waves of different frequencies and phases. I don't know the formula for this transformation, however, and I'm not sure how it works (I haven't experienced playing multiple different notes and having them end up as a totally different note, but that doesn't mean it's impossible).
For continuous sine wave the answer is no. For limited discrete sinusoids see below.
First, this question might be more appropriate for DSP Stack Exchange as you are talking about the subtilties of FFT.
Also be careful of how you interpret FFT outputs. FFT produces ideal outputs only when the input is a discrete complex sinusoid whose frequency is identical to one of the frequency bins.
We're talking about limited discrete complex sinusoidals here not continuous sine waves like $\cos(2\pi ft)$. The former is about a discrete basis for discrete signals of length $N$ but the latter is about the continuous Fourier transform.
Now, how these two are related can be found in Discrete-time Signal Processing by Oppenheim for example and I won't get into it.
But, as long as FFTs are concerned, know that they express a (discrete) vector of length $N$ using a linear combination of the discrete complex sinusoids that build the basis. So if your input isn't exactly one of them, then a bunch of them will work together to build your input signal. That's why you see more than one nonzero bin in the output.
For the continuous sine waves we always have $\int_{0}^{2k\pi}\sin(f_1t)\sin(f_2t) = 0$ whenever $f_1 \ne f_2$. This means that you cannot decompose a continuous sine wave using sine waves of other frequencies.
Keep experimenting with FFT - it's fun - but beware of the math behind!