We theoretically examine the transport properties of non-ideal optical fibres with high numerical aperture. Using a simple spectral method, we derive the modes in perturbed or non-ideal fibres from the numerically evaluated modes of circularly symmetric fibres. We then consider the propagation through the fibre of Gaussian spots, projected onto the distal fibre end. The incident spots are of uniform, arbitrary polarization and positioned at any point on the fibre facet. We then evaluate the effect of propagation through the fibre in terms of various indices. In particular, we consider the motion of the centre of energy, the average polarization state and the average spin and orbital angular momentum. The study includes both step index and graded index optical fibres with symmetric and chiral deformations. We observe a fundamental difference between propagation in step index and graded index optical fibres: in the latter case, the centre of energy converges to the fibre axis as the light propagated along the fibre and in the former it moves erratically about the transverse plane. In addition, we find that circular polarization states are preserved for cylindrically symmetric fibres, of arbitrarily high numerical aperture. However, this property is destroyed by relatively weak deformations of the fibre.
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