In this contribution, we study different types of mode interaction in high-average power, polarization maintaining (PM) ytterbium-doped fiber amplifiers. We analyze how they limit the performance of the fiber amplifier depending on the polarization of light used and introduce restrictions in the configuration of the fiber amplifier architecture. Avoided-crossings between core and cladding modes are studied in detail, with numerical simulations and systematic experiments, revealing that they are stronger when the input polarization is aligned parallel to the fast-axis of the fiber. We will show how the temporal dynamic characteristic of transverse mode instabilities depends on the polarization input angle of the seed laser. Moreover, a dramatic and unexpected deformation of the output beam was observed when operating one of our large-mode area PM fibers in the fast-axis, with a high mode content of the first high order mode in the slow-axis.
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